Publications¶
The following publications acknowledge the use of the Hoffman2 Cluster within the research process. See Acknowledging Hoffman2 to learn how to acknowledge work performed on the Hoffman2 Cluster in papers, presentations and other publications.
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Agak, George W., Alice Mouton, Rosane MB Teles, Thomas Weston, Marco Morselli, Priscila R. Andrade, Matteo Pellegrini, and Robert L. Modlin. “Extracellular traps released by antimicrobial T H 17 cells contribute to host defense.” The Journal of clinical investigation 131, no. 2 (2021). https://doi.org/10.1172/JCI141594
“We used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 12)
Allred, Tyler K., Michael B. Shaghafi, Pan-Pan Chen, Quan Tran, K. N. Houk, and Larry E. Overman. “Constructing Saturated Guanidinum Heterocycles by Cycloaddition of N-Amidinyliminium Ions with Indoles.” Organic Letters (2021). https://doi.org/10.1021/acs.orglett.1c02832
“Calculations were performed on the IDRE Hoffman2 cluster at the University of California, Los Angeles.” (pg. 7622)
Almisbaa, Zahra Nasser. “Computational Modeling of Ni-Based Catalysts for Selective Hydrogenation of Acetylene to Ethylene.” (2021). https://www.proquest.com/openview/e2b9e7b1dd02b4c0f0afdefa02cdf3a3/1?pq-origsite=gscholar&cbl=18750&diss=y
“This work received support from UCLA Institute of Digital Research and Education (IDRE) for computational resources on the UCLA Hoffman2 cluster.” (pg. x)
Anthony, Sarah M., Veronica Tona, Yike Zou, Lucas A. Morrill, John M. Billingsley, Megan Lim, Yi Tang, K. N. Houk, and Neil K. Garg. “Total Synthesis of (−)-Strictosidine and Interception of Aryne Natural Product Derivatives “Strictosidyne” and “Strictosamidyne”.” Journal of the American Chemical Society 143, no. 19 (2021): 7471-7479. https://doi.org/10.1021/jacs.1c02004
“Calculations were performed on the Hoffman2 cluster and the UCLA Institute of Digital Research and Education (IDRE) at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 7476)
Asensio, Omar I., and Magali A. Delmas. “The Dynamics of Information Framing.” (2021). https://escholarship.org/uc/item/5kw4233w
“This study used high performance computing resources on the UCLA Hoffman2 Cluster provided by the Institute for Digital Research and Education’s Research Technology group.” (pg. 34)
Asensio, Omar I., and Magali A. Delmas. “The Dynamics of Consumer Behavior: Novelty and Framing Effects.” (2021). https://escholarship.org/uc/item/1k51r0cp
“This study used high performance computing resources on the UCLA Hoffman2 Cluster provided by the Institute for Digital Research and Education’s Research Technology group.” (pg. 34)
Bennert, Vardha N., Tommaso Treu, Xuheng Ding, Isak Stomberg, Simon Birrer, Tomas Snyder, Matthew A. Malkan, Andrew W. Stephens, and Matthew W. Auger. “A local baseline of the black hole mass scaling relations for active galaxies. IV. Correlations between MBH and host galaxy σ, stellar mass, and luminosity.” arXiv:2101.10355 (2021). https://arxiv.org/abs/2101.10355
“This research has made use of the Dirac computer cluster at the California Polytechnic State University in San Luis Obispo, maintained by Dr. Brian Granger and Dr. Ashley Ringer McDonald, and the Hoffman2 Cluster at the University of California Los Angeles, managed and operated by the IDRE Research Technology Group under the direction of Lisa Snyder.” (pg. 17)
Chen, Pan-Pan, Pengchen Ma, Xue He, Dennis Svatunek, Fang Liu, and Kendall N. Houk. “Computational Exploration of Ambiphilic Reactivity of Azides and Sustmann’s Paradigmatic Parabola.” The Journal of organic chemistry 86, no. 8 (2021): 5792-5804. https://doi.org/10.1021/acs.joc.1c00239
“Calculations were performed on the IDRE Hoffman2 cluster at the University of California, Los Angeles, and the Vienna Scientific Cluster.” (pg. 5802)
Chen, Shuming, Tuo Hu, and K. N. Houk. “Energy of Concert and Origins of Regioselectivity for 1, 3-Dipolar Cycloadditions of Diazomethane.” The Journal of Organic Chemistry 86, no. 9 (2021): 6840-6846. https://doi.org/10.1021/acs.joc.1c00743
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and SCIURus, the Oberlin College HPC cluster (NSF MRI 1427949).” (pg. 6845)
Chen, Xiangyang, Mathias Kirk Thøgersen, Limin Yang, Rune F. Lauridsen, Xiao-Song Xue, Karl Anker Jørgensen, and K. N. Houk. “[8+ 2] vs [4+ 2] Cycloadditions of Cyclohexadienamines to Tropone and Heptafulvenes—Mechanisms and Selectivities.” Journal of the American Chemical Society 143, no. 2 (2021): 934-944. https://doi.org/10.1021/jacs.0c10966
“Computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 942)
Chen, Yuzhen, and Lihua Jin. “Reusable Energy‐Absorbing Architected Materials Harnessing Snapping‐Back Buckling of Wide Hyperelastic Columns.” Advanced Functional Materials (2021): 2102113. https://doi.org/10.1002/adfm.202102113
“This work used computational and storage services associated with the Homan Shared Cluster provided by Institute for Digital Research and Education’s Research Technology Group at UCLA.” (pg. 8)
Chu, Benjamin B., Seyoon Ko, Jin J. Zhou, Hua Zhou, Janet S. Sinsheimer, and Kenneth L. Lange. “Multivariate Genomewide Association Analysis with IHT.” bioRxiv (2021). https://doi.org/10.1101/2021.08.04.455145
“The UCLA Institute for Digital Research and Education’s Research Technology Group supplied computational and storage services through its Hoffman2 Shared Cluster.” (pg. 19)
Deng, Jie, and Lars Stixrude. “Deep fractionation of Hf in a solidifying magma ocean and its implications for tungsten isotopic heterogeneities in the mantle.” Earth and Planetary Science Letters 562 (2021): 116873. https://doi.org/10.1016/j.epsl.2021.116873
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 7)
Deng, Jie, and Lars Stixrude. “Thermal conductivity of silicate liquid determined by machine learning potentials.” Geophysical Research Letters 48, no. 17 (2021): e2021GL093806. https://doi.org/10.1029/2021GL093806
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 8)
Dinh, Cuc K., Jesus M. Salas, Mark R. Morris, and Smadar Naoz. “Effects of turbulence in the Circumnuclear Disk.” arXiv:2102.09569 (2021). https://arxiv.org/pdf/2102.09569.pdf
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 14)
Ding, Yangyao. “Microscopic Modeling, Machine Learning-Based Modeling and Optimal Operation of Thermal and Plasma Atomic Layer Deposition.” PhD diss., UCLA, 2021. https://escholarship.org/uc/item/64v726fm
Dobynde, M. I., and J. Guo. “Radiation environment at the surface and subsurface of the Moon: Model development and validation.” Journal of Geophysical Research: Planets: e2021JE006930. https://doi.org/10.1029/2021JE006930
“This work used computational and storage services464associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital465Research and Educations Research Technology Group.” (pg. 15)
Dobynde, Mikhail, Yuri Shprits, Shafirkin Aleksandr, and Vyacheslav Shurshakov. “The dependence of the LET-spectra on the shielding thickness inside and outside of the magnetosphere of the Earth.” 43rd COSPAR Scientific Assembly. Held 28 January-4 February 43 (2021): 1882. https://ui.adsabs.harvard.edu/abs/2021cosp…43E1882D/abstract
Dobynde, Mikhail, Yuri Shprits, and Vyacheslav Shurshakov. “The advantages of the spherical geometry setup comparing to planar in GCR dose assessment.” 43rd COSPAR Scientific Assembly. Held 28 January-4 February 43 (2021): 1886. https://ui.adsabs.harvard.edu/abs/2021cosp…43E1886D/abstract
Drozdov, A. Y., Hayley J. Allison, Y. Y. Shprits, S. R. Elkington, and N. A. Aseev. “A Comparison of Radial Diffusion Coefficients in 1‐D and 3‐D Long‐Term Radiation Belt Simulations.” Journal of Geophysical Research: Space Physics 126, no. 8 (2021): e2020JA028707. https://doi.org/10.1029/2020JA028707
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 20)
Fan, Zhoulong, Xiangyang Chen, Keita Tanaka, Han Seul Park, Nelson YS Lam, Jonathan J. Wong, K. N. Houk, and Jin-Quan Yu. “Unified Template Strategy for Editing Multiple Remote C–H Bonds.” (2021). https://chemrxiv.org/engage/api-gateway/chemrxiv/assets/orp/resource/item/616134adb564b660c3717447/original/unified-template-strategy-for-editing-multiple-remote-c-h-bonds.pdf
“Computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 18)
Farrell, Colin, Michael Thompson, Anela Tosevska, Adewale Oyetunde, and Matteo Pellegrini. “BiSulfite Bolt: A bisulfite sequencing analysis platform.” GigaScience 10, no. 5 (2021): giab033. https://doi.org/10.1093/gigascience/giab033
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 7)
Gilli, Gabriella, Thomas Navarro, Sebastien Lebonnois, Diogo Quirino, Vasco Silva, Aurelien Stolzenbach, Franck Lefèvre, and Gerald Schubert. “Venus upper atmosphere revealed by a GCM: II. Model validation with temperature and density measurements.” Icarus (2021): 114432. https://doi.org/10.1016/j.icarus.2021.114432
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group, as well as the High-Performance Computing (HPC) resources of Centre Informatique National de l’Enseignement Sup´erieur (CINES) under the allocations A0060110391 and A0080110391 made by Grand Equipment National de Calcul Intensif (GENCI).” (pg. 19)
Gilman, Daniel, Jo Bovy, Tommaso Treu, Anna Nierenberg, Simon Birrer, Andrew Benson, and Omid Sameie. “Strong lensing signatures of self-interacting dark matter in low-mass halos.” arXiv:2105.05259 (2021). https://arxiv.org/ct?url=https%3A%2F%2Fdx.doi.org%2F10.1093%2Fmnras%2Fstab2335&v=fed88dc1
“Second, we used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 16)
Gorla, Aditya, Brandon Jew, Luke Zhang, and Jae Hoon Sul. “xGAP: a python based efficient, modular, extensible and fault tolerant genomic analysis pipeline for variant discovery.” Bioinformatics 37, no. 1 (2021): 9-16. https://doi.org/10.1093/bioinformatics/btaa1097
“The authors thank the support from Hoffman2 and Cerebrum BMAP HPC administrators at UCLA.” (pg. 16; see also: pgs. 12 and 13)
Guo, Han, Claire E. Dickerson, Ashley J. Shin, Changling Zhao, Timothy L. Atallah, Justin R. Caram, Wesley C. Campbell, and Anastassia N. Alexandrova. “Surface chemical trapping of optical cycling centers.” Physical Chemistry Chemical Physics 23, no. 1 (2021): 211-218. https://doi.org/10.1039/D0CP04525J
“This work used computational and storage services associated with the Hoffman2 cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group, the NSF-supported Extreme Science and Engineering Discovery Environment (XSEDE) (TG-CHE160054).” (no page #)
Hao, Wei, Katherine L. Bay, Caleb F. Harris, Daniel S. King, Ilia A. Guzei, Michael M. Aristov, Zhe Zhuang et al. “Probing Catalyst Speciation in Pd-MPAAM-Catalyzed Enantioselective C (sp3)–H Arylation: Catalyst Improvement via Destabilization of Off-Cycle Species.” ACS Catalysis 11, no. 17 (2021): 11040-11048. https://doi.org/10.1021/acscatal.1c02805
“Computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 11046)
Hardy, Anthony J., Maryam Bostani, Erin Angel, Chris Cagnon, Ioannis Sechopoulos, and Michael F. McNitt‐Gray. “Reference dataset for benchmarking fetal doses derived from Monte Carlo simulations of CT exams.” Medical Physics 48, no. 1 (2021): 523-532. https://doi.org/10.1002/mp.14573
“TheMCNPX simulations were conducted using the computa-tional and storage services associated with the Hof fman2Shared Cluster provided by UCLA Institute for DigitalResearch and Education’s Research Technology Group.” (pg. 528)
Hardy, Anthony James, Maryam Bostani, Grace Hyun J. Kim, Christopher H. Cagnon, Maria Agnes Zankl, and Michael McNitt‐Gray. “Evaluating Size‐Specific Dose Estimate (SSDE) as an estimate of organ doses from routine CT exams derived from Monte Carlo simulations.” Medical Physics (2021). https://doi.org/10.1002/mp.15128
“MCNPX simulations were performed using the computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 6)
Hoffarth, Elesha R., Kersti Caddell Haatveit, Eugene Kuatsjah, Gregory A. MacNeil, Simran Saroya, Charles J. Walsby, Lindsay D. Eltis, K. N. Houk, Marc Garcia-Borràs, and Katherine S. Ryan. “A shared mechanistic pathway for pyridoxal phosphate–dependent arginine oxidases.” Proceedings of the National Academy of Sciences 118, no. 40 (2021). https://doi.org/10.1073/pnas.2012591118
“Computations were performed on the Hoffman2 cluster at the University of California, Los Angeles and the Extreme Science and Engineering Discovery Environment, which is supported by the NSF (OCI-1053575).” (pg. 10)
Hou, Bao-Long, Jonathan J. Wong, Na Lv, Yong-Qiang Wang, K. N. Houk, and Chuang-Chuang Li. “Facile generation of bridged medium-sized polycyclic systems by rhodium-catalysed intramolecular (3+ 2) dipolar cycloadditions.” Nature communications 12, no. 1 (2021): 1-8. https://doi.org/10.1038/s41467-021-25513-7
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 8)
Hülsey, Max J., Geng Sun, Philippe Sautet, and Ning Yan. “Observing Single‐Atom Catalytic Sites During Reactions with Electrospray Ionization Mass Spectrometry.” Angewandte Chemie 133, no. 9 (2021): 4814-4823. https://doi.org/10.1002/ange.202011632
“We also thank computa-tional and storage services associated with the Hoffman2Shared Cluster provided by UCLA Institute for DigitalResearch and EducationsResearch Technology Group.” (pg. 4821)
Jellen, Marcus J., Ieva Liepuoniute, Mingoo Jin, Christopher G. Jones, Song Yang, Xing Jiang, Hosea M. Nelson, K. N. Houk, and Miguel A. Garcia-Garibay. “Enhanced Gearing Fidelity Achieved Through Macrocyclization of a Solvated Molecular Spur Gear.” Journal of the American Chemical Society (2021). https://doi.org/10.1021/jacs.1c01885
“Computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575)” (pg. 7746)
Kellerman, Adam C. “Trapped Electron Energy Inferred From Cosmic Noise Absorption Signals Through Drift‐Time Analysis in Empirical Electric and Semi‐Empirical Magnetic Fields.” Journal of Geophysical Research: Space Physics 126, no. 3 (2021): e2020JA028887. https://doi.org/10.1029/2020JA028887
“The electron PSD data employed computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 8)
Khan, Arshad H., and Desmond J. Smith. “Cost-effective mapping of genetic interactions in mammalian cells.” bioRxiv (2021). https://doi.org/10.1101/2021.04.29.441342
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education Research Technology Group.” (pg. 13)
Kim, Yeulwoo, Sangyoung Son, Taehwa Jung, and Timu Gallien. “An analytical and numerical study of a vertically discretized multi-paddle wavemaker for generating free surface and internal waves.” Coastal Engineering 165 (2021): 103840. https://doi.org/10.1016/j.coastaleng.2021.103840
“Numerical simulations pre-sented in this study were carried out using the Hoffman2 cluster at the University of California, Los Angeles.” (pg. 16)
Kim, Y., Mieras, R.S., Anderson, D. and Gallien, T., 2021. A Numerical Study of Sheet Flow Driven by Skewed-Asymmetric Shoaling Waves Using SedWaveFoam. Journal of Marine Science and Engineering, 9(9), p.936. https://doi.org/10.3390/jmse9090936
“Numerical simulations presented in this study were carried out using the Hoffman2 cluster at the University of California, Los Angeles.” (pg 24)
Kochocki, Alina, Volodymyr Takhistov, Alexander Kusenko, and Nathan Whitehorn. “Contribution of Secondary Neutrinos from Line-of-sight Cosmic-Ray Interactions to the IceCube Diffuse Astrophysical Flux.” The Astrophysical Journal 914, no. 2 (2021): 91. https://doi.org/10.3847/1538-4357/abf830
“We also acknowledge use of the Hoffman2 Shared Cluster computational and storage services provided by UCLA’s Institute for Digital Research & Education.” (pg. 9)
Kumari, Simran, and Philippe Sautet. “Highly dispersed Pt atoms and clusters on hydroxylated indium tin oxide: A view from first-principles calculations.” Journal of Materials Chemistry A (2021). https://doi.org/10.1039/D1TA03177E
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education Research Technology Group.” (no page #)
Layman, Rick R., Anthony J. Hardy, Hyun J. Kim, Ei Ne Chou, Maryam Bostani, Chris Cagnon, Dianna Cody, and Michael McNitt‐Gray. “A comparison of breast and lung doses from chest CT scans using organ‐based tube current modulation (OBTCM) vs. Automatic tube current modulation (ATCM).” Journal of applied clinical medical physics (2021). https://doi.org/10.1002/acm2.13198
“MCNPX simulations were performed using the computa-tional and storage services associated with the Hoffman2 Shared Clus-ter provided by UCLA Institute for Digital Research and Education’sResearch Technology Group.” (pg. 101)
Li, Bo, Yuli Li, Yanfeng Dang, and K. N. Houk. “Post-Transition State Bifurcation in Iron-Catalyzed Arene Aminations.” ACS Catalysis 11 (2021): 6816-6824. https://doi.org/10.1021/acscatal.1c01291
“DFT calculations and MD simulations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 6823)
Li, Hao, Honglin Chen, Matt Haberland, Andrea L. Bertozzi, and P. Jeffrey Brantingham. “PDEs on graphs for semi-supervised learning applied to first-person activity recognition in body-worn video.” Discrete & Continuous Dynamical Systems (2021): 0-0. https://escholarship.org/uc/item/8vt5f3vg
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group. ” (pg. 4369)
Liu, Tianzhen, Yuzhen Chen, Liwu Liu, Yanju Liu, Jinsong Leng, and Lihua Jin. “Effect of imperfections on pseudo-bistability of viscoelastic domes.” Extreme Mechanics Letters 49 (2021): 101477. https://doi.org/10.1016/j.eml.2021.101477
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 11)
Ma, Jiajia, Shuming Chen, Peter Bellotti, Renyu Guo, Felix Schäfer, Arne Heusler, Xiaolong Zhang et al. “Photochemical intermolecular dearomative cycloaddition of bicyclic azaarenes with alkenes.” Science 371, no. 6536 (2021): 1338-1345. https://science.sciencemag.org/content/371/6536/1338/tab-pdf
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment, which is supported by the National Science Foundation (grant OCI-1053575).” (pg. 8)
MacDougall, Mason G., Erik A. Petigura, Isabel Angelo, Jack Lubin, Natalie M. Batalha, Corey Beard, Aida Behmard et al. “The TESS-Keck Survey. VI. Two Eccentric sub-Neptunes Orbiting HIP-97166.” arXiv:2110.05628 (2021). https://arxiv.org/abs/2110.05628
“This work also used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 13)
Mackey, Pamela, Aneta Turlik, Kaori Ando, Mark E. Light, K. N. Houk, and Gerard P. McGlacken. “Stereoselective Installation of Five Contiguous Stereogenic Centers in a Double Aldol–Tishchenko Cascade and Evaluation of the Key Transition State through DFT Calculation.” Organic letters 23, no. 16 (2021): 6372-6376. https://doi.org/10.1021/acs.orglett.1c02179
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 6375-6376)
Madson, Austin, and Yongwei Sheng. “Coulomb stress analysis for several filling and operational scenarios at the Grand Ethiopian Renaissance Dam impoundment.” Environmental Earth Sciences 80, no. 7 (2021): 1-17. https://doi.org/10.1007/s12665-021-09591-w
“A portion of this research utilized computational and storage services associated with the Hofman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 296)
Madson, Austin, and Yongwei Sheng. “Automated Water Level Monitoring at the Continental Scale from ICESat-2 Photons.” Remote Sensing 13, no. 18 (2021): 3631. https://doi.org/10.3390/rs13183631
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 3631)
Manwani, P., N. Majernik, M. Yadav, C. Hansel, and J. B. Rosenzweig. “Resonant excitation of very high gradient plasma wakefield accelerators by optical-period bunch trains.” Physical Review Accelerators and Beams 24, no. 5 (2021): 051302. https://doi.org/10.1103/PhysRevAccelBeams.24.051302
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Educations Research Technology Group and the SCARF cluster provided by the STFC Scientific Computing Department.” (pg. 12)
Martin, Henry, Peter Amoako-Yirenkyi, and Eric Kwabena Kyeh Abavare. “Thermodynamic Stable Site for Interstitial alloy (N or O) in bcc-Refractory Metals using Density Functional Theory.” arXiv:2107.10307 (2021). https://arxiv.org/abs/2107.10307
“The authors would like to thank Prof. Jaime Marian and his group at Department of Materials Science and Engineering and Mechanical and Aerospace Engineering, University of California Los Angeles (UCLA), Los Angeles, USA, for his helpful discussion, insightful advice, access and usage of the computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 12)
Meng, Dong, Rui Wang, Janice B. Lin, Jonathan Lee Yang, Selbi Nuryyeva, Yu‐Che Lin, Shuai Yuan et al. “Chlorinated Spiroconjugated Fused Extended Aromatics for Multifunctional Organic Electronics.” Advanced Materials 33, no. 12 (2021): 2006120. https://doi.org/10.1002/adma.202006120
“Calculations were performed on the Homan cluster provided by the UCLA Institute of Digital Research and Education’s Research Technology Group and on the NSF-supported Extreme Science and Engineering Discovery Environment (XSEDE)’s Gordon supercomputer (OCI-) at the San Diego Supercomputing Center. J.B.L. gratefully acknowledges support by the Dissertation Year Fellowship from the UCLA Graduate Division.” (pg. 8)
Mishra, Amrendra, Hamed Mirzaei, Novella Guidi, Manlio Vinciguerra, Alice Mouton, Marina Linardic, Francesca Rappa et al. “Fasting-mimicking diet prevents high-fat diet effect on cardiometabolic risk and lifespan.” Nature Metabolism (2021): 1-15. https://doi.org/10.1038/s42255-021-00469-6
“We used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 1356)
Morselli, Marco, Colin Farrell, Liudmilla Rubbi, Heather L. Fehling, Rebecca Henkhaus, and Matteo Pellegrini. “Targeted bisulfite sequencing for biomarker discovery.” Methods 187 (2021): 13-27. https://doi.org/10.1016/j.ymeth.2020.07.006
“All example code was run on the UCLA Hoffman2 cluster, running UGE (v8.6.4) with 8 requested cores and 32 GB RAM.” (pg. 23)
Murata, Hiromi. “Role of Glial Cells in Diesel Exhaust Particulate Extract-Induced Neurotoxicity in the Larval Zebrafish Brain.” (2021). https://www.proquest.com/dissertations-theses/role-glial-cells-diesel-exhaust-particulate/docview/2579698278/se-2?accountid=14512
“Reads generated from the NextSeq 500 High Output were first transferred to the UCLA Hoffman2 Cluster using Globus. All work on Hoffman2 was performed using Terminal.” (pg. 42)
Nadel, Brian, Meritxell Oliva, Benjamin L. Shou, Keith Mitchell, Feiyang Ma, Dennis J. Montoya, Alice Mouton et al. “Systematic evaluation of transcriptomics-based deconvolution methods and references using thousands of clinical samples.” bioRxiv (2021). https://doi.org/10.1101/2021.03.09.434660
“xCell was run using the online interface at https://xcell.ucsf.edu/, but all other tools were installed on the Hoffman2 Cluster at UCLA.” (pg. 20, see also pgs. 21 and 22)
Nadvornick, Warren, Hsing-Yin Chang, Andrew Alvarado, Pablo Molina, Jaime Marian, and Nasr Ghoniem. “A linked-scale coupled model of mass erosion and redistribution in plasma-exposed micro-foam surfaces.” Journal of Nuclear Materials 553 (2021): 153010. https://doi.org/10.1016/j.jnucmat.2021.153010
“All simu-lations were run at UCLA’s Hoffman2 shared cluster using Intel Xeon E5-2650v4 2.2-GHz processors.” (pg. 11)
Navarro, Thomas, Gabriella Gilli, Gerald Schubert, Sébastien Lebonnois, Franck Lefèvre, and Diogo Quirino. “Venus’ upper atmosphere revealed by a GCM: I. Structure and variability of the circulation.” Icarus 366 (2021): 114400. https://doi.org/10.1016/j.icarus.2021.114400
“This work used computational and storageservices associated with the Hoffman2 Shared Cluster provided byUCLA Institute for Digital Research and Education’s Research Tech-nology Group, as well as the High-Performance Computing (HPC)resources of Centre Informatique National de l’Enseignement Suérieur(CINES) under the allocations A0060110391 and A0080110391 madeby Grand Equipment National de Calcul Intensif (GENCI).” (pg. 18)
Perri, Angela R., Kieren J. Mitchell, Alice Mouton, Sandra Álvarez-Carretero, Ardern Hulme-Beaman, James Haile, Alexandra Jamieson et al. “Dire wolves were the last of an ancient New World canid lineage.” Nature 591, no. 7848 (2021): 87-91. https://doi.org/10.1038/s41586-020-03082-x
“A.M. used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 92)
Psaras, Catherine. “The Impact of the 2011/2012 CDC ACIP Maternal Pertussis Vaccination Recommendation on Infant Pertussis Incidence and Mortality in the United States.” (2021). https://escholarship.org/uc/item/8zq1d3tx
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. ix)
Raghunathan, Srinivasan, Nathan Whitehorn, Marcelo A. Alvarez, Han Aung, Nicholas Battaglia, Gilbert P. Holder, Daisuke Nagai, Elena Pierpaoli, Christian L. Reichardt, and Joaquin D. Vieira. “Constraining Cluster Virialization Mechanism and Cosmology using Thermal-SZ-selected clusters from Future CMB Surveys.” arXiv:2107.10250 (2021). https://arxiv.org/abs/2107.10250
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 21)
Ramirez, Melissa, Evan Darzi, Joyann Donaldson, Kendall N. Houk, and Neil K. Garg. “Cycloaddition Cascades of Strained Alkynes and Oxadiazinones.” Angewandte Chemie (2021). https://doi.org/10.1002/ange.202105244
“Calculations were performed on the Hoffman2 cluster and the UCLA Institute of Digital Research and Education (IDRE) at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI1053575). (pg. 7)
Ramirez, Melissa, Dennis Svatunek, Fang Liu, Neil K. Garg, and Kendall N. Houk. “Origins of Endo Selectivity in Diels–Alder Reactions of Cyclic Allene Dienophiles.” Angewandte Chemie (2021). https://doi.org/10.1002/ange.202101809
“This study used computational andstorage services associated with the Hoffman2 Shared Clusterprovided by the UCLA Institute for Digital Research andEducation. Calculations were in part performed at the ViennaScientific Cluster.” (pg 15123)
Rana, Arjun. “Coherent Diffractive Imaging with Enhanced Contrast Mechanisms.” (2021). https://www.proquest.com/dissertations-theses/coherent-diffractive-imaging-with-enhanced/docview/2506295035/se-2?accountid=14512
“We used the GPU-accelerated package Mumax3 [111] installed on UCLA’s Hoffman2 cluster.” (pg. 63)
Ren, Yi Ming, Yichi Zhang, Yangyao Ding, Tao Liu, Cody S. Lough, Ming C. Leu, Edward C. Kinzel, and Panagiotis D. Christofides. “Finite element modeling of direct metal laser solidification process: Sensor data replication and use in defect detection and data reduction via machine learning.” Chemical Engineering Research and Design (2021). https://doi.org/10.1016/j.cherd.2021.05.018
“Furthermore, to enhance the simulation computa-tional efficiency, job distribution is realized with distributedcloud computing, where more than 100 of 8 GB RAMs areallocated on the UCLA hoffman2 cluster.” (pg. 260)
Rezayee, Nomaan M., Valdemar J. Enemærke, Sif T. Linde, Johannes N. Lamhauge, Gabriel J. Reyes-Rodríguez, Karl Anker Jørgensen, Chenxi Lu, and K. N. Houk. “An Asymmetric SN2 Dynamic Kinetic Resolution.” Journal of the American Chemical Society 143, no. 19 (2021): 7509-7520. https://doi.org/10.1021/jacs.1c02193
“Computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI1053575).” (pg. 7518)
Rossman, Gabriel, and Jacob C. Fisher. “Network hubs cease to be influential in the presence of low levels of advertising.” Proceedings of the National Academy of Sciences 118, no. 7 (2021). https://doi.org/10.1073/pnas.2013391118
“Simulations for this project were conducted using the Duke Compute Cluster, the University of Michigan–Institute for Social Research’s Likert cluster, and the University of California, Los Angeles (UCLA) Hoffman2 cluster.” (pg. 4)
Saikin, A. A., Y. Y. Shprits, A. Y. Drozdov, Daji August Landis, I. S. Zhelavskaya, and S. Cervantes. “Reconstruction of the radiation belts for solar cycles 17–24 (1933–2017).” Space Weather 19, no. 3 (2021): e2020SW002524. https://doi.org/10.1029/2020SW002524
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Re-search and Education’s Research Technology Group.” (pg. 21)
Salas, Jesus M., Mark R. Morris, and Smadar Naoz. “Modeling Turbulence in Galactic Centers.” The Astronomical Journal 161, no. 5 (2021): 243. https://doi.org/10.3847/1538-3881/abefd3
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group” (pg. 10)
Salas, Jesus Mario. “Hydrodynamical Simulations of Turbulence in Galactic Centers.” PhD diss., UCLA, 2021. https://escholarship.org/uc/item/84v7t48w
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. xv)
Scott, Wendell A., Eric G. Gharakhanian, Alexandra G. Bell, Declan Evans, Ehab Barun, K. N. Houk, and Timothy J. Deming. “Active Controlled and Tunable Coacervation Using Side-Chain Functional α-Helical Homopolypeptides.” Journal of the American Chemical Society (2021). https://doi.org/10.1021/jacs.1c07925
“All calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles” (pg. 18202)
Shajib, Anowar J., Tommaso Treu, Simon Birrer, and Alessandro Sonnenfeld. “Dark matter haloes of massive elliptical galaxies at z∼ 0.2 are well described by the Navarro–Frenk–White profile.” Monthly Notices of the Royal Astronomical Society 503, no. 2 (2021): 2380-2405. https://doi.org/10.1093/mnras/stab536
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 2400)
Sheil, Ryan, J. Mark P. Martirez, Xia Sang, Emily A. Carter, and Jane P. Chang. “Precise Control of Nanoscale Cu Etching via Gas-Phase Oxidation and Chemical Complexation.” The Journal of Physical Chemistry C 125, no. 3 (2021): 1819-1832. https://doi.org/10.1021/acs.jpcc.0c08932
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 1830)
Shi, Junjie, Cameron J. Owen, Hio Tong Ngan, Siyu Qin, Vikram Mehar, Philippe Sautet, and Jason F. Weaver. “Formation of a Ti–Cu (111) single atom alloy: Structure and CO binding.” The Journal of Chemical Physics 154, no. 23 (2021): 234703. https://doi.org/10.1063/5.0050800
“The calculations by H.T.N. were performed on the Hoffman2 cluster at the UCLA Institute for Digital Research and Education (IDRE) and the National Energy Research Scientific Computing Center (NERSC) of the U.S. Department of Energy.” (pg. 11)
Shumilov, Kirill D., Zerina Mehmedovic, Hang Yin, Patricia Poths, Selbi Nuryyeva, Ieva Liepuoniute, Chelsea Jang, Isabelle Winardi, and Anastassia N. Alexandrova. “Understanding the Hardness of Doped WB4. 2.” The Journal of Physical Chemistry C 125, no. 17 (2021): 9486-9496. https://doi.org/10.1021/acs.jpcc.1c01780
“Computational resources were provided by XSEDE supported by the National Science Foundation grant ACI1548562 and the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 9495)
Staples, Frances A., Adam C. Kellerman, Kyle Robert Murphy, I. Jonathan Rae, Jasmine Kaur Sandhu, and Colin Forsyth. “Resolving Magnetopause Shadowing Using Multi-Mission Measurements of Phase Space Density.” Earth and Space Science Open Archive ESSOAr (2021). https://www.proquest.com/working-papers/resolving-magnetopause-shadowing-using-multi/docview/2500152911/se-2
“The computations employed computational and storage services associated 563 with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and 564 Education’s Research Technology Group.” (pg. 24)
Sun, Geng, Jack T. Fuller III, Anastassia N. Alexandrova, and Philippe Sautet. “Global Activity Search Uncovers Reaction Induced Concomitant Catalyst Restructuring for Alkane Dissociation on Model Pt Catalysts.” ACS Catalysis 11, no. 3 (2021): 1877-1885. https://doi.org/10.1021/acscatal.0c05421
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 1884)
Sun, Geng, and Philippe Sautet. “Active Site Fluxional Restructuring as a New Paradigm in Triggering Reaction Activity for Nanocluster Catalysis.” Accounts of Chemical Research (2021): 2812-2820. https://doi.org/10.1021/acs.accounts.1c00413
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 3848)
Svatunek, Dennis, Thomas Hansen, Kendall N. Houk, and Trevor A. Hamlin. “How the Lewis Base F–Catalyzes the 1, 3-Dipolar Cycloaddition between Carbon Dioxide and Nitrilimines.” The Journal of Organic Chemistry (2021). https://doi.org/10.1021/acs.joc.0c02963
“Quantum chemical calculations were performed on the Vienna Scientific Cluster (Austria), the Hoffman2 Cluster (UCLA Institute for Digital Research and Education), and the Cartesius supercomputer (SURFsara, Amsterdam).” (pg. E)
Svatunek, Dennis, Martin Wilkovitsch, Lea Hartmann, Kendall Houk, and Hannes Mikula. “Uncovering the key role of distortion in tetrazine ligations guides the design of bioorthogonal tools with high reactivity and superior stability.” (2021). https://doi.org/10.33774/chemrxiv-2021-vnwzk
“The computational results presented have been achieved using the Vienna Scientific cluster (VSC) at TU Wien and the Hoffman2 cluster at UCLA.” (pg. 5)
Turlik, Aneta, Kaori Ando, Pamela Mackey, Emma Alcock, Mark Light, Gerard P. McGlacken, and K. N. Houk. “Mechanism and Origins of Stereoselectivity of the Aldol-Tishchenko Reaction of Sulfinimines.” The Journal of Organic Chemistry (2021). https://doi.org/10.1021/acs.joc.0c02862
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (grant OCI-1053575).” (pg. G)
Turlik, Aneta, Kendall N. Houk, and Dennis Svatunek. “Origin of Increased Reactivity in Rhenium-Mediated Cycloadditions of Tetrazines.” (2021). https://doi.org/10.33774/chemrxiv-2021-9s0r5
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Vienna Scientific Cluster.” (pg. 4)
Vollhardt, Peter, Robin Padilla, Kendall N. Houk, and Jonathan J. Wong. “Bis (η5-cyclopentadienyl)[μ-(4b, 5, 5a-η3: 9b, 10, 10a-η3)-2, 3, 7, 8-tetrakis (trimethylsilyl) benzo [3, 4] cyclobuta [1, 2-b] biphenylene]-syn-dicobalt (Co–Co), a Dinuclear П-Complex of the Linear [3] Phenylene Frame.” Synlett AAM (2021). https://doi.org/10.1055/a-1659-7656.
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and in the Extreme Science and Engineering Discovery Environment (XSEDE), which is funded by the National Science Foundation (Grant OCI-1053575).” (pg. D)
Wei, Ziyang, Shona M. Becwar, Bradley F. Chmelka, and Philippe Sautet. “Atomic Environments in N-Containing Graphitic Carbon Probed by First-Principles Calculations and Solid-State Nuclear Magnetic Resonance.” The Journal of Physical Chemistry C 125, no. 16 (2021): 8779-8787. https://doi.org/10.1021/acs.jpcc.1c00511
“The calculations were performed on the Hoffman2 cluster at UCLA Institute for Digital Research and Education (IDRE) and the Extreme Science and Engineering Discovery Environment (XSEDE),56 which is supported by the National Science Foundation grant number ACI-1548562, through allocation TG-CHE170060.” (pg. 8786)
Whang, Grace, Qizhang Yan, Da Li, Ziyang Wei, Danielle Butts, Philippe Sautet, Jian Luo, and Bruce Dunn. “Avoiding dendrite formation by confining lithium deposition underneath Li–Sn coatings.” Journal of Materials Research 36, no. 4 (2021): 797-811. https://doi.org/10.1557/s43578-020-00047-8
“The calculations were performed on the Hoffman2 cluster at the UCLA Institute for Digital Research and Education (IDRE), and the Extreme Science and Engineering Discovery Environment (XSEDE) [67], which is supported by National Science Foundation grant number ACI- 1548562, through allocation TG-CHE170060.” (pg 808)
Wong, Jonathan J., Xiangyang Chen, Kendall N. Houk, and K. Peter C. Vollhardt. “The Trajectory of the (η5-Cyclopentadienyl) cobalt-Mediated Cycloisomerization of Ene-Yne-Ene-Type Allyl Propargylic Ethers to Furans: A DFT Appraisal.” Synthesis (2021). https://www.thieme-connect.com/products/ejournals/html/10.1055/a-1645-2632
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 4288)
Xia, Yantao, and Philippe Sautet. “Thermodynamics of Atomic Layer Etching Chemistry on Copper and Nickel Surfaces from First Principles.” Chemistry of Materials 33, no. 17 (2021): 6774-6786. https://doi.org/10.1021/acs.chemmater.1c01324
“The authors gratefully acknowledge the support from UCLA Institute of Digital Research and Education (IDRE) for computational resources on the UCLA Hoffman2 cluster.” (pg. 6785)
Yeung, Christopher, David Ho, Benjamin Pham, Katherine T. Fountaine, and Aaswath P. Raman. “Enhancing Adjoint Optimization-based Photonics Inverse Design with Explainable Machine Learning.” arXiv:2109.14886 (2021). https://arxiv.org/abs/2109.14886
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 14)
Yu, Hsuan Ming, and Amartya S. Banerjee. “Density functional theory method for twisted geometries with application to torsional deformations in group-IV nanotubes.” arXiv:2103.00049 (2021). https://arxiv.org/abs/2103.00049
“All simulations involving Helical DFT were run using a dedicated desktop workstation (Dell Precision 7920 Tower) or single nodes of the Hoffman2 cluster at UCLA’s Institute for Digital Research and Education (IDRE). […]Each compute node of the Hoffman2 cluster has two 18-core Intel Xeon Gold 6140 processors (with 24.75 MB cache, running at 2.3 GHz), 192 GB of RAM and local SSD storage. MATLAB version 9.7.0 (R2019b) was used for the simulations. Compilation of C language routines was carried out using MinGW (on the workstation) and GCC (on the Hoffman2 nodes) software suites.” (pg. 24)
Zhang, Song, Masato Koizumi, Zhiqiang Cao, Keyou S. Mao, Zhiyuan Qian, Luke A. Galuska, Lihua Jin, and Xiaodan Gu. “Directly Probing the Fracture Behavior of Ultrathin Polymeric Films.” ACS Polymers Au (2021). https://doi.org/10.1021/acspolymersau.1c00005
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by Institute for Digital Research and Education’s Research Technology Group at the University of California, Los Angeles.” (pg. 27)
Zhang, Yichi. “Multiscale Computational Fluid Dynamics Modeling of Thermal and Plasma Atomic Layer Deposition: Application to Chamber Design and Process Control.” PhD diss., UCLA, 2021. https://escholarship.org/uc/item/35g9g1cs
Zou, Yike, and K. N. Houk. “Mechanisms and Dynamics of Synthetic and Biosynthetic Formation of Delitschiapyrones: Solvent Control of Ambimodal Periselectivity.” Journal of the American Chemical Society 143, no. 30 (2021): 11734-11740. https://doi.org/10.1021/jacs.1c05293
“All DFT calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 11738)
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Abreu S, Febres Cordero F, H Ita, M Jaquier, B Page, MS Ruf, and V Sotnikov. 2020. “Two-Loop Four-Graviton Scattering Amplitudes”. Physical Review Letters. 124 (21). https://journals.aps.org/prl/abstract/10.1103/PhysRevLett.124.211601
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg.5)
Ascenzi, Maria-Grazia, Andrea Zonca, and Joyce H. Keyak. 2020. “Effect of cortical bone micro-structure in fragility fracture patients on lamellar stress”. Journal of Biomechanics. 100: 2020-02. https://www.sciencedirect.com/science/article/pii/S0021929019308590
“We acknowledge Jennifer Lourenço and Hasan Muqri for preliminary calculations, UCLA’s Academic Technology Services for Hoffman2 Cluster resources, Extreme Science and Engineering Discovery Environment (XSEDE) for Supercomputer Comet at UC San Diego resources with dedicated support of a High Performance Computing consultant through the Extended Collaborative Support Service (ECSS).” (pg. 8)
Besken, Mert, Datta, Shouvik, and Kraus, Per. 2019. Quantum thermalization and Virasoro symmetry. http://arxiv.org/abs/1907.06661. https://iopscience.iop.org/article/10.1088/1742-5468/ab900b/meta
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 24)
Brito J.J., Martin L.S., Mangul S., Mosqueiro T., Pellegrini M., et al. 2020. “Telescope: An interactive tool for managing large-scale analysis from mobile devices”. GigaScience. 9 (1). https://academic.oup.com/gigascience/article-abstract/9/1/giz163/5714889
“17. About Hoffman2 - Institute for Digital Research and Education. https://idre.ucla.edu/hoffman2/. Accessed 5 December 2019.” (pg. 6)
“25. Jupyter Notebook - Hoffman2 Cluster User Guide - UCLA. https://www.hoffman2.idre.ucla.edu/access/jupyter-notebook/. Accessed 5 December 2019.” (pg 6)
Ceran, Basak Bostanci, Alp Karakoç, and Ertuğrul Taciroğlu. 2020. “Airborne pathogen projection during ophthalmic examination”. Graefe’s Archive for Clinical and Experimental Ophthalmology. https://link.springer.com/article/10.1007/s00417-020-04815-4
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 7)
Chang, Jonathan, Daniel L Rabosky, Michael E Alfaro, and Thomas Buckley. 2020. “Estimating Diversification Rates on Incompletely Sampled Phylogenies: Theoretical Concerns and Practical Solutions”. Systematic Biology. 69 (3): 602-611. https://academic.oup.com/sysbio/article-abstract/69/3/602/5658637
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 610)
Chen, Pan‐Pan, Jeffrey I. Seeman, and Kendall N. Houk. 2020. “Rolf Huisgen’s Classic Studies of Cyclic Triene Diels–Alder Reactions Elaborated by Modern Computational Analysis”. Angewandte Chemie International Edition. 59 (30): 12506-12519. https://onlinelibrary.wiley.com/doi/abs/10.1002/anie.202003279
“Calculations were performed on the IDRE Hoffman2 cluster at the University of California, LosAngeles.” (pg 12518)
Chen, Shuming, Jonathan J. Wong, and K. N. Houk. 2020. “Mechanism of the Manolikakes Enamide-Based Domino Reaction for the Stereospecific Construction of Tetrahydropyrans”. The Journal of Organic Chemistry. 85 (5): 3806-3811. https://pubs.acs.org/doi/abs/10.1021/acs.joc.9b03440
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 3810)
Cheung, Clifford, and Solon, Mikhail P. 2020. Tidal Effects in the Post-Minkowskian Expansion. https://arxiv.org/abs/2006.06665
“The calculations here used the computer algebra system Mathematica [48] in combination with FeynCalc [49] and xAct [50], as well as the On-Line Encyclopedia of Integer Sequences [51] and the Hoffman2 Cluster at the Institute for Digital Research and Education at UCLA.” (pg. 5)
Chu, Benjamin B, Kevin L Keys, Christopher A German, Hua Zhou, Jin J Zhou, Eric M Sobel, Janet S Sinsheimer, and Kenneth Lange. 2020. “Iterative hard thresholding in genome-wide association studies: Generalized linear models, prior weights, and double sparsity”. GigaScience. 9 (6). https://www.biorxiv.org/content/10.1101/697755v3.abstract
“We thank UCLA for providing the computing resources via the Hoffman2 cluster.” (pg. 22)
Debrauwer, Vincent, Aneta Turlik, Lénaic Rummler, Alessandro Prescimone, Nicolas Blanchard, K. N. Houk, and Vincent Bizet. 2020. “Ligand-Controlled Regiodivergent Palladium-Catalyzed Hydrogermylation of Ynamides”. Journal of the American Chemical Society. 142 (25): 11153-11164. https://pubs.acs.org/doi/abs/10.1021/jacs.0c03556
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (grant OCI-1053575).” (pg. 11162)
Demoret, Robert M., Meghan A. Baker, Masaki Ohtawa, Shuming Chen, Ching-Ching Lam, Sophia Khom, Marisa Roberto, Stefano Forli, Kendall N. Houk, and Ryan A. Shenvi. “Synthetic, Mechanistic and Biological Interrogation of Ginkgo biloba Chemical Space en route to (–)-Bilobalide.” Journal of the American Chemical Society (2020). https://doi.org/10.1021/jacs.0c08231
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), supported by the National Science Foundation (OCI-1053575).” (pg. P)
Ding, Yangyao, Yichi Zhang, Gerassimos Orkoulas, and Panagiotis D. Christofides. 2020. “Microscopic modeling and optimal operation of plasma enhanced atomic layer deposition”. Chemical Engineering Research and Design. 159: 439-454. https://www.sciencedirect.com/science/article/pii/S0263876220302379
“To boost the computational speed and efficiently utilize all available computational resources, we adopt a distributed computation using the UCLA Hoffman2 cluster. With the developed workflow, the kMC models are submitted as computation jobs to the Hoffman2 job queue, and the job scheduler will distribute the jobs onto different cores to allow parallel runs of the kMC models.” (section 3.2)
Dobynde, M.I., and Y.Y. Shprits. 2020. “Radiation environment created with GCRs inside a spacecraft”. Life Sciences in Space Research. 24: 116-121. https://www.sciencedirect.com/science/article/pii/S2214552419300677
“This work used computational and storage services associated withthe Hoffman2 Shared Cluster provided by UCLA’s Institute for DigitalResearch and Education’s Research Technology Group.” (pg. 121)
Drozdov, A. Y., M. E. Usanova, M. Hudson, H. J. Allison, and Y. Y. Shprits. 2020. “The role of hiss, chorus and EMIC waves in the modeling of the dynamics of the multi‐MeV radiation belt electrons”. Journal of Geophysical Research: Space Physics. https://agupubs.onlinelibrary.wiley.com/doi/abs/10.1029/2020JA028282
“This work used computational and storageservices associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 11)
Fan, Zhoulong, Katherine L. Bay, Xiangyang Chen, Zhe Zhuang, Han Seul Park, Kap-Sun Yeung, K. N. Houk, and Jin-Quan Yu. 2020. “Rational Development of Remote C−H Functionalization of Biphenyl: Experimental and Computational Studies”. Angewandte Chemie. 132 (12): 4800-4807. https://onlinelibrary.wiley.com/doi/abs/10.1002/anie.201915624
“Computations were performed on the Hoffman2 cluster at UCLA andthe Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 4776)
Galy, Tiphaine, Daniel Huang, and Laurent Pilon. 2020. “Revisiting independent versus dependent scattering regimes in suspensions or aggregates of spherical particles”. Journal of Quantitative Spectroscopy and Radiative Transfer. 246. https://www.sciencedirect.com/science/article/pii/S0022407319309100
Gamble, Amandine, Romain Garnier, Thierry Chambert, Olivier Gimenez, and Thierry Boulinier. 2020. “Next-generation Serology: Integrating Cross-sectional and Capture-recapture Approaches to Infer Disease Dynamics”. The Bulletin of the Ecological Society of America. 101 (2). https://esajournals.onlinelibrary.wiley.com/doi/abs/10.1002/ecy.2923
“This work used computational and storage services associated with the shared clusters provided by CEFE-CNRS and UCLA Institute for Digital Research and Education’s Research Technology Group (Hoffman2).” (pg. 10)
Gao, Lei, Cong Su, Xiaoxia Du, Ruishan Wang, Shuming Chen, Yu Zhou, Chengwei Liu, et al. 2020. “FAD-dependent enzyme-catalysed intermolecular [4+2] cycloaddition in natural product biosynthesis”. Nature Chemistry. 12 (7): 620-628. https://www.nature.com/articles/s41557-020-0467-7
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (grant OCI-1053575).” (pg. 272)
Gao S, M Duan, KN Houk, and M Chen. 2020. “Chiral Phosphoric Acid Dual-Function Catalysis: Asymmetric Allylation with α-Vinyl Allylboron Reagents”. Angewandte Chemie (International Ed. in English). 59 (26): 10540-10548. https://onlinelibrary.wiley.com/doi/abs/10.1002/anie.202000039
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which issupported by the National Science Foundation (OCI-1053575).” (pg. 10546)
Gao, Shang, Meng Duan, Qianzhen Shao, K. N. Houk, and Ming Chen. “Development of α, α-Disubstituted Crotylboronate Reagents and Stereoselective Crotylation via Brønsted or Lewis Acid Catalysis.” Journal of the American Chemical Society (2020). https://doi.org/10.1021/jacs.0c04107
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 18364)
Ge, Yijun, and Timothy S. Fisher. 2020. “Photoconductivity calculations of bilayer graphene from first principles and deformation-potential approach”. Physical Review B. 101 (23). https://journals.aps.org/prb/abstract/10.1103/PhysRevB.101.235429
“This work used the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the US National Science Foundation, Grant No. DMR170128 and computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 8)
Gieuw, Matthew H., Shuming Chen, Zhihai Ke, K. N. Houk, and Ying-Yeung Yeung. 2020. “Boron tribromide as a reagent for anti-Markovnikov addition of HBr to cyclopropanes”. Chemical Science. https://pubs.rsc.org/fi/content/articlehtml/2020/sc/d0sc02567d
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 8)
Gilman, Daniel, Birrer, Simon, and Treu, Tommaso. 2020. TDCOSMO III: Dark matter substructure meets dark energy – the effects of (sub)halos on strong-lensing measurements of H0. http://arxiv.org/abs/2007.01308.
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 12)
Guo, Han, Dickerson, Claire E.; Shin, Ashley; Zhao, Changling; Atallah, Timothy; Caram, Justin; et al. (2020): Surface Chemical Trapping of Optical Cycling Centers. ChemRxiv. Preprint. https://doi.org/10.26434/chemrxiv.12869900.v1
“This work used computational and storage services associated with the Hoffman2 cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group, the NSF-supported Extreme Science and Engineering Discovery Environment (XSEDE) (TG-CHE160054).” (pg. 21)
Hansel C., An W., Mori W., and Rosenzweig J.B. 2020. “Nonlinear equilibria and emittance growth in plasma wakefield accelerators with ion motion”. ArXiv. https://arxiv.org/abs/2003.12062
“Simulations are run on UCLA’s Hoffman2 computing cluster.” (pg. 8)
Hennefarth, Matthew R., and Anastassia N. Alexandrova. 2020. “Direct Look at the Electric Field in Ketosteroid Isomerase and Its Variants”. ACS Catalysis. 10 (17): 9915-9924. https://pubs.acs.org/doi/abs/10.1021/acscatal.0c02795
“We also acknowledge the UCLA-IDRE cluster Hoffman2 computational resources.” (pg. 9923)
Huang, Brian Z, Alexandra M Binder, Catherine A Sugar, Chun R Chao, Veronica Wendy Setiawan, and Zuo-Feng Zhang. 2020. “Methylation of immune-regulatory cytokine genes and pancreatic cancer outcomes”. Epigenomics.
Huffman B.J., Schwarz J.L., Plata R.E., Chin E.N., Lairson L.L., Shenvi R.A., Chen S., and Houk K.N. 2020. “Electronic complementarity permits hindered butenolide heterodimerization and discovery of novel cGAS/STING pathway antagonists”. Nature Chemistry. 12 (3): 310-317. https://www.nature.com/articles/s41557-019-0413-8
“All calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles and the Extreme Science and Engineering Discovery Environment (XSEDE) supported by the NSF (OCI-1053575).” (pg. 318)
Jiao Deng, Sheng-Chih Lin, Jack Fuller, Jesus A. Iñiguez, Danlei Xiang, Di Yang, Gary Chan, Hao Ming Chen, Anastassia N. Alexandrova, and Chong Liu. 2020. “Ambient methane functionalization initiated by electrochemical oxidation of a vanadium (V)-oxo dimer”. Nature Communications. 11 (1): 1-10. https://www.nature.com/articles/s41467-020-17494-w
“A.N.A. acknowledges the NSF Career Award (CHE-1351968), and the XSEDE and the UCLA-IDRE cluster Hoffman2 for computational resources.” (pg. 10)
Jimenez, Amy M, Junghee Lee, Eric A Reavis, Jonathan K Wynn, and Michael F Green. 2020. “Neural Correlates of True and False Recognition Memory for Socially Relevant Information in Schizophrenia”. Schizophrenia Bulletin Open. 1 (1). https://academic.oup.com/schizbullopen/article-abstract/1/1/sgaa029/5857703
“fMRI data analysis for this study used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 7)
Kalligeris N., Gallien T.W., Smit P.B., Ludka B.C., and Guza R.T. 2020. “Calibration and assessment of process-based numerical models for beach profile evolution in southern California”. Coastal Engineering. 158. https://www.sciencedirect.com/science/article/pii/S0378383918304575
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Educations Research Technology Group.” (pg. 26)
Khan, Arshad H., Andy Lin, Richard T Wang, Joshua S Bloom, Kenneth Lange, and Desmond J. Smith. 2020. “Pooled analysis of radiation hybrids identifies loci for growth and drug action in mammalian cells”. Genome Research. gr.262204.120. https://genome.cshlp.org/content/early/2020/09/01/gr.262204.120
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education Research Technology Group.” (pg. 16)
Li F., Mori W.B., Decyk V.K., Mori W.B., Li F., Xu X., Hogan M.J., and An W. 2020. “A quasi-static particle-in-cell algorithm based on an azimuthal Fourier decomposition for highly efficient simulations of plasma-based acceleration: QPAD”. ArXiv. https://arxiv.org/abs/2002.08494
“The simulations were performed on the UCLA Hoffman 2 and Dawson 2 Clusters, the resources of the National Energy Research Scientific Computing Center, and the Super Computing Center of Beijing Normal University.” (pg. 22)
Li, X., Duan, M., Deng, Z. et al. Catalytic enantioselective synthesis of chiral tetraarylmethanes. Nat Catal 3, 1010–1019 (2020). https://doi.org/10.1038/s41929-020-00535-4
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 1019)
Li, Yolanda L., Chih-Te Zee, Janice B. Lin, Victoria M. Basile, Mit Muni, Maria D. Flores, Julen Munarriz et al. “Fjord-edge Graphene Nanoribbons with Site-Specific Nitrogen Substitution.” Journal of the American Chemical Society (2020). https://doi.org/10.1021/jacs.0c07657
“This work used computational and storage services associated with the Hoffman2 cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group, the NSF-supported Extreme Science and Engineering Discovery Environment (XSEDE) (NSF-OCI−1054575 and TG-CHE160054), and high-performance research computing resources by Texas A&M University (http://hprc.tamu.edu).” (pg. 18100)
Liepuoniute I., Huynh C.M., Perez-Estrada S., Khan S., Houk K.N., Garcia-Garibay M.A., Huynh C.M., Perez-Estrada S., and Wang Y. 2020. “Enhanced Rotation by Ground State Destabilization in Amphidynamic Crystals of a Dipolar 2,3-Difluorophenylene Rotator as Established by Solid State 2H NMR and Dielectric Spectroscopy”. Journal of Physical Chemistry C. 124 (28): 15391-15398. https://pubs.acs.org/doi/abs/10.1021/acs.jpcc.0c05314
“Computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 15397)
Liepuoniute, Ieva, Jacob N. Sanders, Miguel A. Garcia-Garibay, and K. N. Houk. 2020. “Computational Investigation into Ligand Effects on Correlated Geared Dynamics in Dirhodium Supramolecular Gears—Insights Beyond the NMR Experimental Window”. The Journal of Organic Chemistry. 85 (13): 8695-8701. https://pubs.acs.org/doi/abs/10.1021/acs.joc.0c01230
“Computations were performed on the Hoffman2 cluster at the UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 8700)
Liu, JY. 2020. (Photo)Electrocatalytic CO2 Reduction at the Defective Anatase TiO2 (101) Surface. ACS Catalysis. 4048-4058. eScholarship, University of California. https://escholarship.org/uc/item/12c1r19v.
“We also acknowledge the UCLA-IDRE cluster Hoffman2 and XSEDE for computational resources.” (pg. 16)
Lu Qiu, and Wenya Nan. 2020. “Brain Network Constancy and Participant Recognition: an Integrated Approach to Big Data and Complex Network Analysis”. Frontiers in Psychology. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7283910/
“2. https://www.ccn.ucla.edu/wiki/index.php/Hoffman2:MATLAB:EEGLAB:Jobs.” (pg. 3, footnote 2)
Madson, Austin, and Yongwei Sheng. 2020. “Reservoir Induced Deformation Analysis for Several Filling and Operational Scenarios at the Grand Ethiopian Renaissance Dam Impoundment”. Remote Sensing. 12 (11): 1886. https://www.mdpi.com/2072-4292/12/11/1886
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 16)
McCraney, W. Tyler, Christine E. Thacker, and Michael E. Alfaro. 2020. “Supermatrix phylogeny resolves goby lineages and reveals unstable root of Gobiaria”. Molecular Phylogenetics and Evolution. 151. https://www.sciencedirect.com/science/article/pii/S1055790320301342
Miao, Yu, Nicholas W. Johnson, Thien Phan, Kimberly Heck, Phillip B. Gedalanga, Xiaoru Zheng, David Adamson, Charles Newell, Michael S. Wong, and Shaily Mahendra. 2020. “Monitoring, assessment, and prediction of microbial shifts in coupled catalysis and biodegradation of 1,4-dioxane and co-contaminants”. Water Research. 173. https://www.sciencedirect.com/science/article/pii/S0043135420300762
Morselli, Marco, Colin Farrell, Liudmilla Rubbi, Heather L. Fehling, Rebecca Henkhaus, and Matteo Pellegrini. 2020. “Targeted bisulfite sequencing for biomarker discovery”. Methods. https://www.sciencedirect.com/science/article/pii/S1046202320300839
Neiser, Tom F. 2020. “Fermi Degenerate Antineutrino Star Model of Dark Energy”. Advances in Astronomy. 2020: 1-11. https://www.hindawi.com/journals/aa/2020/8654307/
“This work used computational resources associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education.” (pg. 10)
Ni, Dongshun, Brittany P. Witherspoon, Hong Zhang, Chen Zhou, K. N. Houk, and M. Kevin Brown. 2020. “Stereoselective [4+2]-Cycloaddition with Chiral Alkenylboranes”. Angewandte Chemie. 132 (28): 11529-11536. https://onlinelibrary.wiley.com/doi/full/10.1002/ange.202000652
“Computations were performed on the Hoffman2 cluster at UCLA.” (pg. 11535)
O’Connor, Christopher R., Kaining Duanmu, Dipna A. Patel, Eri Muramoto, Matthijs A. van Spronsen, Dario Stacchiola, E. Charles H. Sykes, Philippe Sautet, Robert J. Madix, and Cynthia M. Friend. 2020. “Facilitating hydrogen atom migration via a dense phase on palladium islands to a surrounding silver surface”. Proceedings of the National Academy of Sciences. 202010413. https://www.pnas.org/content/early/2020/09/01/2010413117
“The DFT calculations were performed on the HOFFMAN2 cluster at the University of California, Los Angeles, Institute for Digital Research and Education, on the National Energy Research Scientific Computing Center, a DOE Office of Science User Facility supported under Contract No. DE-AC02-05CH11231, through allocation m3275, and on computing resources at Extreme Science and Engineering Discovery Environment (XSEDE) through the allocation CHE170060.” (pg. 7)
Peng, Lele, Ziyang Wei, Chengzhang Wan, Jing Li, Zhuo Chen, Dan Zhu, Daniel Baumann, et al. 2020. “A fundamental look at electrocatalytic sulfur reduction reaction”. Nature Catalysis.
“The calculations were performed on the Hoffman2 cluster at UCLA Institute for Digital Research and Education (IDRE), The National Energy Research Scientific Computing Center (NERSC), and the Extreme Science and Engineering Discovery Environment (XSEDE)52, which is supported by National Science Foundation grant number ACI-1548562, through allocation TG-CHE170060.” (pg. 9)
Qianran Yu, Michael Reyes, Nachiket Shah, and Jaime Marian. 2020. “Kinetic Model of Incipient Hydride Formation in Zr Clad under Dynamic Oxide Growth Conditions”. Materials. 13 (5). https://www.mdpi.com/1996-1944/13/5/1088
“This work was done using computer time allocations at UCLA’s IDRE Hoffman2 supercomputer.” (pg. 15)
Ramirez M, W Li, YH Lam, L Ghosez, and KN Houk. 2020. “Mechanisms and Conformational Control of (4 + 2) and (2 + 2) Cycloadditions of Dienes to Keteniminium Cations”. The Journal of Organic Chemistry. 85 (4): 2597-2606. https://pubs.acs.org/doi/abs/10.1021/acs.joc.9b03340
“This study used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 2605)
Sang, Xia, Yantao Xia, Philippe Sautet, and Jane P. Chang. 2020. “Atomic layer etching of metals with anisotropy, specificity, and selectivity”. Journal of Vacuum Science & Technology A. 38 (4): 043005. https://avs.scitation.org/doi/abs/10.1116/6.0000225
“The authors thank Changju Choi and Tristan Tronic at Intel as well as Nathan Marchack at IBM for providing Ni samples and fruitful discussions. Yantao Xia and Philippe Sautet acknowledge UCLA IDRE for computational resources on the Hoffman2 cluster.” (pg. 38)
Sarwal, Varuni, Sebastian Niehus, et. al. 2002. “A comprehensive benchmarking of WGS-based structural variant callers.” bioRxiv, Cold Spring Harbor Laboratory. https://www.biorxiv.org/content/early/2020/05/26/2020.04.16.045120
“The CPU time was computed using either the GNU time program that is inbuilt in make bash terminals or the Hoffman2 Cluster qsub command.[…] For qsubs on the Hoffman2 Cluster, we used the command qsub -m e which would email the user a full list of records when the tool finished running.” (pg. 41)
Shajib, Anowar J., Tommaso Treu, Simon Birrer, and Alessandro Sonnenfeld. “Massive elliptical galaxies at $ zsim 0.2$ are well described by stars and a Navarro-Frenk-White dark matter halo.” arXiv preprint arXiv:2008.11724 (2020). https://arxiv.org/abs/2008.11724
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and EducationâĂŹs Research Technology Group. AJS thanks Smadar Naoz for providing access to additional computing nodes on the Hoffman2 Shared Cluster.” (pg. 20 and 21)
Shang, Rui, Stephan N. Steinmann, Bo-Qing Xu, and Philippe Sautet. 2020. “Mononuclear Fe in N-doped carbon: computational elucidation of active sites for electrochemical oxygen reduction and oxygen evolution reactions”. Catalysis Science & Technology. 10 (4): 1006-1014. https://pubs.rsc.org/lv/content/articlehtml/2020/cy/c9cy01935a
“This work used computational and storage services associated with the Hoffman2 shared cluster provided by UCLA Institute for Digital Research and Education Group.” (pg. 1013)
Shen, Zican, Morgan M. Walker, Shuming Chen, Giovanny A. Parada, Duc M. Chu, Sun Dongbang, James M. Mayer, K. N. Houk, and Jonathan A. Ellman. “General Light-Mediated, Highly Diastereoselective Piperidine Epimerization: From Most Accessible to Most Stable Stereoisomer.” Journal of the American Chemical Society (2020). https://doi.org/10.1021/jacs.0c11911
“Calculations were performed on the Hoffman2 cluster at UCLA, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (Grant OCI-1053575).” (pg. E)
Sumaria, Vaidish, Luan Nguyen, Franklin Feng Tao, and Philippe Sautet. 2020. “Optimal Packing of CO at a High Coverage on Pt(100) and Pt(111) Surfaces.” ACS Catalysis 10 (16), 9533-9544. DOI: 10.1021/acscatal.0c01971 https://pubs.acs.org/doi/abs/10.1021/acscatal.0c01971
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 9543)
Sun, Geng. 2020. Structural Rearrangements of Subnanometer Cu Oxide Clusters Govern Catalytic Oxidation. ACS CATALYSIS. 5309-5317. eScholarship, University of California. https://escholarship.org/uc/item/3x72764b.
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 19)
Tan Y, S Chen, Z Zhou, Y Hong, S Ivlev, KN Houk, and E Meggers. 2020. “Intramolecular C(sp3)-H Bond Oxygenation through Transition Metal Acylnitrenoids”. Angewandte Chemie (International Ed. in English).
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 5)
Walker, Morgan M., Brian Koronkiewicz, Shuming Chen, K. N. Houk, James M. Mayer, and Jonathan A. Ellman. 2020. “Highly Diastereoselective Functionalization of Piperidines by Photoredox-Catalyzed α-Amino C–H Arylation and Epimerization”. Journal of the American Chemical Society. 142 (18): 8194-8202. https://pubs.acs.org/doi/abs/10.1021/jacs.9b13165
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 8201)
Widmer, Devon R., and Benjamin J. Schwartz. 2020. “The Role of the Solvent in the Condensed-Phase Dynamics and Identity of Chemical Bonds: The Case of the Sodium Dimer Cation in THF”. The Journal of Physical Chemistry B. 124 (30): 6603-6616. https://pubs.acs.org/doi/abs/10.1021/acs.jpcb.0c03298
“The authors also thank the Institute for Digital Research and Education (IDRE) at UCLA for use of the hoffman2 computing cluster.” (pg. 6615)
Widmer, Devon Rose. 2020. Local Solvent Environment Can Define Solute Chemical Identity, Dynamics, and Reactivity. eScholarship, University of California. https://escholarship.org/uc/item/6k11q2sc.
“I also gratefully acknowledge the Institute for Digital Research and Education (IDRE) at UCLA for use of the hoffman2 computing cluster.” (pg. xvi)
Xu, Yan, Jonathan J. Wong, Adrian E. Samkian, Jeong Hoon Ko, Shuming Chen, K. N. Houk, and Robert H. Grubbs. “Efficient Z-Selective Olefin-Acrylamide Cross-Metathesis Enabled by Sterically Demanding Cyclometalated Ruthenium Catalysts.” Journal of the American Chemical Society (2020). https://doi.org/10.1021/jacs.0c11334
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. E)
Xia, Yantao. 2020. Thermodynamic Screening of Reaction Chemistries for Atomic Layer Etching of Metals. eScholarship, University of California. https://escholarship.org/uc/item/8p6071qm.
Xu, Xinlu, David B. Cesar, Sébastien Corde, Vitaly Yakimenko, Mark J. Hogan, Chan Joshi, Agostino Marinelli, and Warren B. Mori. “Generation of terawatt, attosecond pulses from relativistic transition radiation.” arXiv preprint arXiv:2007.12736 (2020). https://arxiv.org/abs/2007.12736
“The simulations were performed on the UCLA Hoffman 2 and Dawson 2 Clusters, and the resources of the National Energy Research Scientific Computing Center.” (pg. 5)
Xu, Xinlu, Fei Li, Frank S. Tsung, Thamine N. Dalichaouch, Weiming An, Han Wen, Viktor K. Decyk, Ricardo A. Fonseca, Mark J. Hogan, and Warren B. Mori. 2020. “On numerical errors to the fields surrounding a relativistically moving particle in PIC codes”. Journal of Computational Physics. 413: 109451. https://www.sciencedirect.com/science/article/pii/S0021999120302254
Ye, Chen‐Xi, Shuming Chen, Feng Han, Xiulan Xie, Sergei Ivlev, K. N. Houk, and Eric Meggers. 2020. “Atroposelective Synthesis of Axially Chiral N‐Arylpyrroles by Chiral‐at‐Rhodium Catalysis”. Angewandte Chemie. 132 (32): 13654-13658. https://onlinelibrary.wiley.com/doi/abs/10.1002/ange.202004799
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 13657)
Yeung, Christopher, Ju-Ming Tsai, Brian King, Yusaku Kawagoe, David Ho, Mark W. Knight, and Aaswath P. Raman. 2020. “Elucidating the Behavior of Nanophotonic Structures through Explainable Machine Learning Algorithms”. ACS Photonics. 7 (8): 2309-2318. https://pubs.acs.org/doi/abs/10.1021/acsphotonics.0c01067
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 2317)
Yi, Xiyu, and Shimon Weiss. 2020. “Cusp-artifacts in high order superresolution optical fluctuation imaging.” Biomedical Optics Express 11, no. 2: 554-570.
“Finally, we acknowledge the computational and storage services provided by the Hoffman2 Shared Cluster maintained by the Research Technology Group of the UCLA Institute for Digital Research and Education.” (pg. 569)
Yujian Zhao, Weiming An, Xinlu Xu, Fei Li, Lance Hildebrand, Mark J. Hogan, Vitaly Yakimenko, Chan Joshi, and Warren B. Mori. 2020. “Emittance preservation through density ramp matching sections in a plasma wakefield accelerator”. Physical Review Accelerators and Beams. 23 (1). https://journals.aps.org/prab/abstract/10.1103/PhysRevAccelBeams.23.011302
“The simulations were run on Bluewaters, NERSC, and the UCLA Hoffman2 clusters.” (pg. 10)
Zah, Eugenia, Eunwoo Nam, Vinya Bhuvan, Uyen Tran, Brenda Y. Ji, Stanley B. Gosliner, Xiuli Wang, Christine E. Brown, and Yvonne Y. Chen. 2020. “Systematically optimized BCMA/CS1 bispecific CAR-T cells robustly control heterogeneous multiple myeloma”. Nature Communications. 11 (1): 1-13. https://www.nature.com/articles/s41467-020-16160-5
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 12 and 13)
Zeng, Tieqiang, Geng Sun, Changxi Miao, George Yan, Yingchun Ye, Weimin Yang, and Philippe Sautet. “Stabilizing Oxidative Dehydrogenation Active Sites at High Temperature with Steam: ZnFe2O4-Catalyzed Oxidative Dehydrogenation of 1-Butene to 1, 3-Butadiene.” ACS Catalysis 10 (2020): 12888-12897. https://doi.org/10.1021/acscatal.0c03405
“The DFT calculations were performed on the HOFFMAN2 cluster at the UCLA Institute for Digital Research and Education (IDRE).” (pg. 12896)
Zhang Y., Ding Y., Christofides P.D., and Christofides P.D. 2020. “Integrating feedback control and run-to-run control in multi-wafer thermal atomic layer deposition of thin films”. Processes. 8 (1). https://www.mdpi.com/2227-9717/8/1/18
“On the UCLA Hoffman2 Cluster, the parallel computation of the multiscale CFD model is implemented with the Message Passing Interface (MPI) [29].” (pg. 6)
Zhang, Yichi, Yangyao Ding, and Panagiotis D. Christofides. 2020. “Multiscale computational fluid dynamics modeling and reactor design of plasma-enhanced atomic layer deposition”. Computers and Chemical Engineering. 142: 2020-11. https://www.sciencedirect.com/science/article/pii/S0098135420307407
Zhang, Yichi, Yangyao Ding, Zhe Wu, and Panagiotis D. Christofides. “Run-to-Run Control of Thermal Atomic Layer Deposition.” In 2020 28th Mediterranean Conference on Control and Automation (MED), pp. 1080-1086. IEEE, 2020. https://doi.org/10.1109/MED48518.2020.9183059
“Therefore, to improve the computational efficiency, multiscale CFD computations are parallelized on the UCLA Hoffman2 Cluster with the Message Passing Interface (MPI) [18].” (pg. 1082)
Zhang, Zizhao, Weng Kee Wong, and Kay Chen Tan. 2020. “Competitive swarm optimizer with mutated agents for finding optimal designs for nonlinear regression models with multiple interacting factors”. Memetic Computing. 12 (3): 219-233. https://link.springer.com/article/10.1007/s12293-020-00305-6
“All experiments were run on Hoffman2 shared cluster housed at the University of California at Los Angeles.” (pg. 223)
Zink, Jon K., Kevin K. Hardegree-Ullman, Jessie L. Christiansen, Courtney D. Dressing, Ian J. M. Crossfield, Erik A. Petigura, Joshua E. Schlieder, and David R. Ciardi. 2020. “Scaling K2 . II. Assembly of a Fully Automated C5 Planet Candidate Catalog Using EDI-Vetter”. The Astronomical Journal. 159 (4): 154. https://iopscience.iop.org/article/10.3847/1538-3881/ab7448/meta
“The simulations described here were performed on the UCLA Hoffman2 shared computing cluster and using the resources provided by the Bhaumik Institute.” (pg. 21)
Zou, Yike, Jonathan J. Wong, and K. N. Houk. 2020. “Computational exploration of a redox-neutral organocatalytic Mitsunobu reaction”. Journal of the American Chemical Society. https://pubs.acs.org/doi/10.1021/jacs.0c07487
“All Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 5)
Zou, Yike, Song Yang, Jacob N. Sanders, Wei Li, Peiyuan Yu, Hongbo Wang, Zhijun Tang, Wen Liu, and K. N. Houk. “Computational Investigation of the Mechanism of Diels–Alderase PyrI4.” Journal of the American Chemical Society (2020). https://doi.org/10.1021/jacs.0c10813
“All calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (Pg. F)
Alvarado, Andrew. “Raytracing Monte Carlo Method for calculating Secondary Electron Emission and Sputtering Effects on Micro-Architected Structures.” (2019). https://escholarship.org/uc/item/45h2f1jk
“This is for Intel Xeon E5-2650v4 CPUs installed on the hoffman2 cluster at UCLA, running at 2.2 GHz, with 4 GB of memory.” (pg. 23)
Alvarado, Andrew, Hsing-Yin Chang, Warren Nadvornick, Nasr Ghoniem, and Jaime Marian. “Monte Carlo raytracing method for calculating secondary electron emission from micro-architected surfaces.” Applied Surface Science 478 (2019): 142-149. https://arxiv.org/pdf/1806.00205.pdf
Aralis, Hilary, and Ron Brookmeyer. “A stochastic estimation procedure for intermittently-observed semi-Markov multistate models with back transitions.” Statistical methods in medical research 28, no. 3 (2019): 770-787. https://journals.sagepub.com/doi/pdf/10.1177/0962280217736342
“All components of this simulation study used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 779)
Aseev, N. A., and Y. Y. Shprits. “Reanalysis of Ring Current Electron Phase Space Densities Using Van Allen Probe Observations, Convection Model, and Log‐Normal Kalman Filter.” Space Weather 17, no. 4 (2019): 619-638. https://agupubs.onlinelibrary.wiley.com/doi/full/10.1029/2018SW002110
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLAInstitute for Digital Research and Educations Research Technology Group.” (pg. 637)
Aseev, N. A., Y. Y. Shprits, D. Wang, J. Wygant, A. Y. Drozdov, A. C. Kellerman, and G. D. Reeves. “Transport and loss of ring current electrons inside geosynchronous orbit during the 17 March 2013 storm.” Journal of Geophysical Research: Space Physics 124, no. 2 (2019): 915-933. https://agupubs.onlinelibrary.wiley.com/doi/full/10.1029/2018JA026031
“This work used computational and storageservices associated with the Hoffman2S hared Cluster provided by UCLA Institute for Digital Research andEducation’s Research Technology Group.” (pg. 930)
Bertuzzi, Giulio, Mathias Kirk Thøgersen, Maxime Giardinetti, Andreu Vidal-Albalat, Adam Simon, K. N. Houk, and Karl Anker Jørgensen. “Catalytic enantioselective hetero-[6+ 4] and-[6+ 2] cycloadditions for the construction of condensed polycyclic pyrroles, imidazoles, and pyrazoles.” Journal of the American Chemical Society 141, no. 7 (2019): 3288-3297. https://pubs.acs.org/doi/abs/10.1021/jacs.8b13659
Besken, Mert, Shouvik Datta, and Per Kraus. “Quantum thermalization and Virasoro symmetry.” arXiv preprint arXiv:1907.06661 (2019). https://arxiv.org/abs/1907.06661
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 25)
Cai, Lingchao, Kui Zhang, Shuming Chen, Romain J. Lepage, K. N. Houk, Elizabeth H. Krenske, and Ohyun Kwon. “Catalytic asymmetric Staudinger–aza-Wittig reaction for the synthesis of heterocyclic amines.” Journal of the American Chemical Society 141, no. 24 (2019): 9537-9542. https://pubs.acs.org/doi/abs/10.1021/jacs.9b04803
Chang, Dr. Jonathan, Dr. Stephen Smoth, Jonathan Chang¹, Daniel L. Rabosky, Stephen A. Smith, and Michael E. Alfaro. “Methods in Ecology and Evolution.” https://www.researchgate.net/profile/Jonathan_Chang5/publication/332063722_An_R_package_and_online_resource_for_macroevolutionary_studies_using_the_ray-finned_fish_tree_of_life/links/5ca5d15d458515f78522625d/An-R-package-and-online-resource-for-macroevolutionary-studies-using-the-ray-finned-fish-tree-of-life.pdf
“This research used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group, as well as computational resources provided by Advanced Research Computing at the University of Michigan, Ann Arbor.” (pg. 14)
Chang, Jonathan, Daniel L. Rabosky, Stephen A. Smith, and Michael E. Alfaro. “An r package and online resource for macroevolutionary studies using the ray‐finned fish tree of life.” Methods in Ecology and Evolution 10, no. 7 (2019): 1118-1124. https://besjournals.onlinelibrary.wiley.com/doi/full/10.1111/2041-210X.13182
“This research used computational and storage services associated with the Hoffman2 Shared Cluster pro-vided by UCLA Institute for Digital Research and Education’s Research Technology Group, as well as computational resources provided by Advanced Research Computing at the University of Michigan, Ann Arbor.” (pg. 1123)
Chen, Geoff CF, Christopher D. Fassnacht, Sherry H. Suyu, Cristian E. Rusu, James HH Chan, Kenneth C. Wong, Matthew W. Auger et al. “A SHARP view of H0LiCOW: H 0 from three time-delay gravitational lens systems with adaptive optics imaging.” Monthly Notices of the Royal Astronomical Society 490, no. 2 (2019): 1743-1773. https://academic.oup.com/mnras/article/490/2/1743/5568378
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 1767)
Chen, Honglin, Hao Li, Alexander Song, Matt Haberland, Osman Akar, Adam Dhillon, Tiankuang Zhou, Andrea L. Bertozzi, and P. Jeffrey Brantingham. “Semi-Supervised First-Person Activity Recognition in Body-Worn Video.” arXiv preprint arXiv:1904.09062 (2019). https://arxiv.org/abs/1904.09062
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Educations Research Technology Group.” (pg. 11)
Chen, Maggie, Cyndi Qixin He, and K. N. Houk. “Mechanism and Regioselectivity of an Unsymmetrical Hexadehydro-Diels–Alder (HDDA) Reaction.” The Journal of organic chemistry 84, no. 4 (2019): 1959-1963. https://pubs.acs.org/doi/full/10.1021/acs.joc.8b02865
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 1962)
Chen, Shuming, Sining Wang, and K. N. Houk. “Origins of Contrasteric π-Facial Selectivity in Epoxidations of Encumbered Tetrahydropyridines by a Bifunctional Peracid.” Synlett 30, no. 04 (2019): 459-463. https://pdfs.semanticscholar.org/0f05/47267be12265ba97b6de1d33245b10c22307.pdf
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE).” (pg. 461)
Curd, Emily E., Zack Gold, Gaurav S. Kandlikar, Jesse Gomer, Max Ogden, Taylor O’Connell, Lenore Pipes et al. “Anacapa Toolkit: an environmental DNA toolkit for processing multilocus metabarcode datasets.” Methods in Ecology and Evolution 10, no. 9 (2019): 1469-1475. https://besjournals.onlinelibrary.wiley.com/doi/full/10.1111/2041-210X.13214
“We thank R. D’Auria for helping us implement Anacapa on the UCLA Hoffman2 cluster, and S. Chadalapaka for assistance with the MERCED cluster.” (pg. 1962)
Darzi, Evan, Joyann Barber, and Neil Garg. 2019. “Cyclic Alkyne Approach to Heteroatom-containing Polycyclic Aromatic Hydrocarbon Scaffolds”. ChemRxiv. doi:10.26434/chemrxiv.7613027.v1. https://doi.org/10.26434/chemrxiv.7613027.v1
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 15)
Darzi, Evan R., Joyann S. Barber, and Neil K. Garg. “Cyclic Alkyne Approach to Heteroatom‐Containing Polycyclic Aromatic Hydrocarbon Scaffolds.” Angewandte Chemie 131, no. 28 (2019): 9519-9524. https://doi.org/10.26434/chemrxiv.7834940
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and EducationQs Research Technology Group.” (pg. 9523)
Ding, Yangyao, Yichi Zhang, Yi Ming Ren, Gerassimos Orkoulas, and Panagiotis D. Christofides. “Machine learning-based modeling and operation for ALD of SiO2 thin-films using data from a multiscale CFD simulation.” Chemical Engineering Research and Design 151 (2019): 131-145. https://doi.org/10.1016/j.cherd.2019.09.005
“However, a complete half-cycle simulation of the multiscale CFD model takes 5–10 days to finish depending on the operating conditions, utilizing the parallel computation workflow with 36 cores on the UCLA Hoffman2 Cluster ([18]).” (section 2.4)
Dobynde, M. I., F. Effenberger, D. A. Kartashov, Y. Y. Shprits, and V. A. Shurshakov. “Ray-tracing simulation of the radiation dose distribution on the surface of the spherical phantom of the MATROSHKA-R experiment onboard the ISS.” Life sciences in space research 21 (2019): 65-72. https://doi.org/10.1016/j.lssr.2019.04.001
Fluder, Martin, Seyed Morteza Hosseini, and Christoph F. Uhlemann. “Black hole microstate counting in Type IIB from 5d SCFTs.” Journal of High Energy Physics 2019, no. 5 (2019): 134. https://link.springer.com/article/10.1007/JHEP05(2019)134
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 19)
Fu, Xia-Ping, Xiao-Song Xue, Xue-Ying Zhang, Yu-Lan Xiao, Shu Zhang, Yin-Long Guo, Xuebing Leng, Kendall N. Houk, and Xingang Zhang. “Controllable catalytic difluorocarbene transfer enables access to diversified fluoroalkylated arenes.” Nature chemistry 11, no. 10 (2019): 948-956. https://www.nature.com/articles/s41557-019-0331-9
“Computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 956)
Ge, Yijun, and Timothy S. Fisher. “First-principles calculations of bilayer graphene photoconductivity.” arXiv preprint arXiv:1907.11323 (2019). https://arxiv.org/abs/1907.11323
“This work used the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation grant number ACI-1548562 and computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Educations Research Technology Group.” (pg. 8)
Gilman, Daniel, Simon Birrer, Anna Nierenberg, Tommaso Treu, Xiaolong Du, and Andrew Benson. “Warm dark matter chills out: constraints on the halo mass function and the free-streaming length of dark matter with 8 quadruple-image strong gravitational lenses.” Monthly Notices of the Royal Astronomical Society (2019). https://doi.org/10.1093/mnras/stz3480
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 6096)
Gilman, Daniel, Simon Birrer, Tommaso Treu, Anna Nierenberg, and Andrew Benson. “Probing dark matter structure down to 107 solar masses: flux ratio statistics in gravitational lenses with line-of-sight haloes.” Monthly Notices of the Royal Astronomical Society 487, no. 4 (2019): 5721-5738. https://doi.org/10.1093/mnras/stz1593
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg 5734)
Hardy, Anthony J., Erin Angel, Maryam Bostani, Chris Cagnon, and Michael McNitt‐Gray. “Estimating fetal dose from tube current‐modulated (TCM) and fixed tube current (FTC) abdominal/pelvis CT examinations.” Medical physics 46, no. 6 (2019): 2729-2743. https://doi.org/10.1002/mp.13499
“This work used the computational andstorage services of the Hoffman2 Shared Cluster provided bythe UCLA Institute for Digital Research and Education’sResearch Technology Group.” (pg. 2731)
Hardy, Anthony J., Maryam Bostani, Andrew M. Hernandez, Maria Zankl, Cynthia McCollough, Chris Cagnon, John M. Boone, and Michael McNitt‐Gray. “Estimating a size‐specific dose for helical head CT examinations using Monte Carlo simulation methods.” Medical physics 46, no. 2 (2019): 902-912. https://doi.org/10.1002/mp.13301
“This study used computational and storage servicesassociated with the Hoffman2 Shared Cluster provided byUCLA Institute for Digital Research and Education’sResearch Technology Group.” (pg. 905)
He, Cyndi Qixin, Ching Ching Lam, Peiyuan Yu, Zhihui Song, Maggie Chen, Yu-hong Lam, Shuming Chen, and K. N. Houk. “Catalytic Effects of Ammonium and Sulfonium Salts and External Electric Fields on Aza-Diels–Alder Reactions.” The Journal of Organic Chemistry 85, no. 4 (2019): 2618-2625. https://doi.org/10.1021/acs.joc.9b03446
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (grant OCI1053575).” (pg. 2623)
Svatunek, Dennis, and Kendall N. Houk. “autoDIAS: a python tool for an automated distortion/interaction activation strain analysis.” Journal of computational chemistry 40, no. 28 (2019): 2509-2515. https://doi.org/10.1002/jcc.26023
“In the following three examples of DIAS analyses are pres-ented, which were prepared using autoDIAS on the Hoffman 2cluster at UCLA.” (pg 2510)
“autoDIASwas tested on the Windows 10 Ubuntu subsystem on a personalcomputer, on the Hoffman2 cluster at UCLA and the ViennaScientific Cluster 3 (VSC3, Vienna, Austria).” (pg 2511)
“Computer time at Hoffman2was provided by the UCLA Institute for Digital Research andEducation (IDRE).” (pg 2514)
Jimenez, Amy M., Philipp Riedel, Junghee Lee, Eric A. Reavis, and Michael F. Green. “Linking resting‐state networks and social cognition in schizophrenia and bipolar disorder.” Human brain mapping 40, no. 16 (2019): 4703-4715. https://doi.org/10.1002/hbm.24731
“fMRI data anal-ysis for this study used computational and storage services associatedwith the Hoffman2 Shared Cluster provided by UCLA Institute for Digi-tal Research and Education’s Research Technology Group.” (pg 4712)
Krysan, Kostyantyn, Linh M. Tran, Brandon S. Grimes, Gregory A. Fishbein, Atsuko Seki, Brian K. Gardner, Tonya C. Walser et al. “The immune contexture associates with the genomic landscape in lung adenomatous premalignancy.” Cancer Research 79, no. 19 (2019): 5022-5033. https://cancerres.aacrjournals.org/content/79/19/5022.full-text.pdf
“The authors thank Drs. Antoni Ribas and Siwen Hu-Lieskovan for assistance with the HALO system, LaurenWinter for administrative support, Francis Rosen for clinical coordination, the UCLA Jonsson Comprehensive Cancer Center for shared resources, the UCLA CNSI Advanced Light Microscopy/Spectroscopy Facility, and the UCLA Institute for Digital Research and Education for providing the Hoffman2 Cluster.” (pg 5032)
Lee, Junghee, Eric A. Reavis, Stephen A. Engel, Lori L. Altshuler, Mark S. Cohen, David C. Glahn, Keith H. Nuechterlein, Jonathan K. Wynn, and Michael F. Green. “fMRI evidence of aberrant neural adaptation for objects in schizophrenia and bipolar disorder.” Human brain mapping 40, no. 5 (2019): 1608-1617. https://doi.org/10.1002/hbm.24472
“fMRI data analysis for this study used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg 1615)
McCraney, William Tyler. “Phylogeny and Divergence Times of Gobiarian Fishes.” (2019). https://escholarship.org/content/qt19m3p095/qt19m3p095.pdf
“Computational and storage services associated with the Hoffman2 Shared Cluster were provided by UCLA Institute for Digital Research and Education Research Technology Group.” (pg. 31)
Miao, Yu, Nicholas W. Johnson, Phillip B. Gedalanga, David Adamson, Charles Newell, and Shaily Mahendra. “Response and recovery of microbial communities subjected to oxidative and biological treatments of 1, 4-dioxane and co-contaminants.” Water research 149 (2019): 74-85. https://doi.org/10.1016/j.watres.2018.10.070
Mirocha, Jordan, and Steven R. Furlanetto. “What does the first highly redshifted 21-cm detection tell us about early galaxies?.” Monthly Notices of the Royal Astronomical Society 483, no. 2 (2019): 1980-1992. https://doi.org/10.1093/mnras/sty3260
“This work used computational and storage services associated with the HOFFMAN2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group, and relied on the Python packages NUMPY12 (Oliphant 2007) and MATPLOTLIB13 (Hunter 2007).” (pg 1991)
Montoya, Dennis J., Priscila Andrade, Bruno JA Silva, Rosane MB Teles, Feiyang Ma, Bryan Bryson, Saheli Sadanand et al. “Dual RNA-seq of human leprosy lesions identifies bacterial determinants linked to host immune response.” Cell reports 26, no. 13 (2019): 3574-3585. https://doi.org/10.1016/j.celrep.2019.02.109
“This work used computational and storage services associated with the Hoffman2 Shared Clusterprovided by UCLA Institute for Digital Research and Education’s ResearchTechnology Group.” (pg 3583)
Mu, Xin, Jonathan C. Axtell, Nicholas A. Bernier, Kent O. Kirlikovali, Dahee Jung, Alexander Umanzor, Kevin Qian et al. “Sterically unprotected nucleophilic boron cluster reagents.” Chem 5, no. 9 (2019): 2461-2469. https://doi.org/10.1016/j.chempr.2019.07.018
“Calculations were performed on the Hoffman2 cluster atUCLA and the Extreme Science and Engineering Discovery Environment (XSEDE),which is supported by the National Science Foundation (OCI-1053575).” (pg. 2468)
Neiser, Tom. “Neutrino Star Cosmology.” (2019). https://www.preprints.org/manuscript/201806.0175/v2
“This work used computational resources associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education.” (pg. 14)
Ranganathan, Sudarsan VS, Dariush Divsalar, and Richard D. Wesel. “Quasi-cyclic protograph-based raptor-like LDPC codes for short block-lengths.” IEEE Transactions on Information Theory 65, no. 6 (2019): 3758-3777. https://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=8626506
“The work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 3776)
Rhodes, Tyler James. “Numerical Study of 3D Magnetohydrodynamic Flows Towards Liquid Metal Blankets, Including Complex Geometry and Buoyancy Effects.” (2019). https://escholarship.org/uc/item/3hh8f39x
“The numerical efforts in Part I of this research used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. xxxii)
“Using the Hoffman2 computer cluster at UCLA, each simulation was run in parallel on 64 or 128 nodes until steady state solutions were reached as determined by the L2 norm of the residuals reaching the order of 10.” (pg. 5)
Salas, Jesus M., Mark R. Morris, and Smadar Naoz. “The Transient Dynamics of the Turbulent Central Molecular Zone.” arXiv preprint arXiv:1909.12307 (2019). https://arxiv.org/abs/1909.12307
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 8)
Salas, Jesus M., Smadar Naoz, Mark R. Morris, and Alexander P. Stephan. “Unseen companions of V Hya inferred from periodic ejections.” Monthly Notices of the Royal Astronomical Society 487, no. 3 (2019): 3029-3036. https://doi.org/10.1093/mnras/stz1515
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 3036)
San Miguel Claveria, P., E. Adli, L. D. Amorim, W. An, C. E. Clayton, Sebastien Corde, S. Gessner et al. “Betatron radiation and emittance growth in plasma wakefield accelerators.” Philosophical Transactions of the Royal Society A 377, no. 2151 (2019): 20180173. https://doi.org/10.1098/rsta.2018.0173
“Simulations were performed on the UCLA Hoffman2 cluster through NSF OCI-1036224.” (pg. 8)
Sun, Geng, and Philippe Sautet. “Toward fast and reliable potential energy surfaces for metallic Pt clusters by hierarchical delta neural networks.” Journal of chemical theory and computation 15, no. 10 (2019): 5614-5627. https://doi.org/10.1021/acs.jctc.9b00465
“All the calculations are conducted on Hoffman2 at UCLA with four CPUs on Intel-E5330 processors.” (pg. 5624)
Sundberg, Christopher D., and Oliver Hankinson. “A CRISPR/Cas9 whole-genome screen identifies genes required for Aryl Hydrocarbon Receptor-dependent induction of functional CYP1A1.” Toxicological Sciences 170, no. 2 (2019): 310-319. https://doi.org/10.1093/toxsci/kfz111
“Data were exported in qseq format and processed on the UCLA Hoffman2 cluster.” (pg. 312)
Svatunek, Dennis, and Kendall N. Houk. “autoDIAS: a python tool for an automated distortion/interaction activation strain analysis.” Journal of computational chemistry 40, no. 28 (2019): 2509-2515. https://doi.org/10.1002/jcc.26023
“In the following three examples of DIAS analyses are pres-ented, which were prepared using autoDIAS on the Hoffman 2cluster at UCLA.” (pg. 2510)
“autoDIASwas tested on the Windows 10 Ubuntu subsystem on a personalcomputer, on the Hoffman2 cluster at UCLA and the ViennaScientific Cluster 3 (VSC3, Vienna, Austria).” (pg 2511)
“Computer time at Hoffman2was provided by the UCLA Institute for Digital Research andEducation (IDRE).” (pg. 2514)
Tang, Yan, Chithra Asokan, Mingjie Xu, George W. Graham, Xiaoqing Pan, Phillip Christopher, Jun Li, and Philippe Sautet. “Rh single atoms on TiO 2 dynamically respond to reaction conditions by adapting their site.” Nature communications 10, no. 1 (2019): 1-10. https://www.nature.com/articles/s41467-019-12461-6
“The calculations were performed at the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group as well as partially at Tsinghua National Laboratory for Information Science and Technology.” (pg 5625)
Yan, George, and Philippe Sautet. “Surface Structure of Co3O4 (111) under Reactive Gas-Phase Environments.” ACS Catalysis 9, no. 7 (2019): 6380-6392. https://doi.org/10.1021/acscatal.9b01485
“The calculations in this work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA’s Institute for Digital Research and Education Group (IDRE).” (pg. 6390)
Yen-Pon, Expédite, Pier Alexandre Champagne, Lucie Plougastel, Sandra Gabillet, Pierre Thuéry, Mizuki Johnson, Gilles Muller et al. “Sydnone-Based Approach to Heterohelicenes through 1, 3-Dipolar-Cycloadditions.” Journal of the American Chemical Society 141, no. 4 (2019): 1435-1440. https://doi.org/10.1021/jacs.8b11465
“Computations were performed on the Hoffman2 cluster at UCLA.” (pg. 1439)
Yi, Xiyu, Rafael Piestun, and Shimon Weiss. “3D super-resolution imaging using a generalized and scalable progressive refinement method on sparse recovery (PRIS).” Single Molecule Spectroscopy and Superresolution Imaging XII 10884 (2019): 1088406. https://doi.org/10.1117/12.2506827
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 11)
Zhang, Bin, Geng Sun, Shipeng Ding, Hiroyuki Asakura, Jia Zhang, Philippe Sautet, and Ning Yan. “Atomically Dispersed Pt1–Polyoxometalate Catalysts: How Does Metal–Support Interaction Affect Stability and Hydrogenation Activity?.” Journal of the American Chemical Society 141, no. 20 (2019): 8185-8197. https://doi.org/10.1021/jacs.9b00486
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 8195)
Zhang, Chenhao, Shuming Chen, Chen‐Xi Ye, Klaus Harms, Lilu Zhang, K. N. Houk, and Eric Meggers. “Asymmetric Photocatalysis by Intramolecular Hydrogen‐Atom Transfer in Photoexcited Catalyst–Substrate Complex.” Angewandte Chemie 131, no. 41 (2019): 14604-14608. https://doi.org/10.1002/ange.201905647
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 14607)
Zhang, Renwei, Wengang Guo, Meng Duan, Kendall N. Houk, and Jianwei Sun. “Asymmetric Desymmetrization of Oxetanes for the Synthesis of Chiral Tetrahydrothiophenes and Tetrahydroselenophenes.” Angewandte Chemie International Edition 58, no. 50 (2019): 18055-18060. https://doi.org/10.1002/anie.201910917
“Calculations were performed on theHoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which issupported by the National Science Foundation (OCI-1053575).” (pg. 18059)
Zhang, Yu. “Post-Earthquake Performance Assessment and Decision-Making for Tall Buildings: Integrating Statistical Modeling, Machine Learning, Stochastic Simulation and Optimization.” (2019). https://escholarship.org/uc/item/06v5h2x3
“The analyses were conducted using 500 cores on the UCLA Hoffman2 Cluster for 4 weeks.” (pg. 72)
Zhang, Yu, and Henry V. Burton. “Pattern recognition approach to assess the residual structural capacity of damaged tall buildings.” Structural safety 78 (2019): 12-22. https://doi.org/10.1016/j.strusafe.2018.12.004
Zhang, Yu, Henry V. Burton, Mehrdad Shokrabadi, and John W. Wallace. “Seismic Risk Assessment of a 42-Story Reinforced Concrete Dual-System Building Considering Mainshock and Aftershock Hazard.” Journal of Structural Engineering 145, no. 11 (2019): 04019135. https://ascelibrary.org/doi/pdf/10.1061/%28ASCE%29ST.1943-541X.0002427
“The analyses were conducted using 500 cores on the UCLA Hoffman2 Cluster for 4 weeks.” (pg. 9)
Zhou, Yanguang, Julien Tranchida, Yijun Ge, Jayathi Y. Murthy, and Timothy S. Fisher. “Atomistic Simulation of Phonon and Magnon Thermal Transport across the Ferro-Paramagnetic Transition.” arXiv preprint arXiv:1901.00966 (2019). https://arxiv.org/abs/1901.00966
“This work was supported by the National Science Foundation (NSF) (Project number: NSF1758004) and used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 19)
Zhou, Zijun, Shuming Chen, Yubiao Hong, Erik Winterling, Yuqi Tan, Marcel Hemming, Klaus Harms, K. N. Houk, and Eric Meggers. “Non-C 2-Symmetric Chiral-at-Ruthenium Catalyst for Highly Efficient Enantioselective Intramolecular C (sp3)–H Amidation.” Journal of the American Chemical Society 141, no. 48 (2019): 19048-19057. https://doi.org/10.1021/jacs.9b09301
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 19055)
Zhou, Zijun, Shuming Chen, Jie Qin, Xin Nie, Xingwen Zheng, Klaus Harms, Radostan Riedel, K. N. Houk, and Eric Meggers. “Catalytic Enantioselective Intramolecular C (sp3)− H Amination of 2‐Azidoacetamides.” Angewandte Chemie International Edition 58, no. 4 (2019): 1088-1093. https://doi.org/10.1002/anie.201811927
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environ-ment (XSEDE), which is supported by the National ScienceFoundation (Grant OCI-1053575).” (pg. 1092)
Zhu, Hui, Yuri Y. Shprits, M. Spasojevic, and Alexander Y. Drozdov. “New hiss and chorus waves diffusion coefficient parameterizations from the Van Allen Probes and their effect on long-term relativistic electron radiation-belt VERB simulations.” Journal of Atmospheric and Solar-Terrestrial Physics 193 (2019): 105090. https://doi.org/10.1016/j.jastp.2019.105090
Zou, Yike, Shuming Chen, and K. N. Houk. “Origins of Selective Formation of 5-Vinyl-2-methylene Furans from Oxyallyl/Diene (3+ 2) Cycloadditions with Pd (0) Catalysis.” Journal of the American Chemical Society 141, no. 31 (2019): 12382-12387. https://doi.org/10.1021/jacs.9b05762
“All calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 12386)
Baldo, Elisabeth, and Steven A. Margulis. “Assessment of a multiresolution snow reanalysis framework: a multidecadal reanalysis case over the upper Yampa River basin, Colorado.” Hydrology & Earth System Sciences 22, no. 7 (2018). https://doi.org/10.5194/hess-22-3575-2018
“All simulations were performed by using computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 3585)
Bingang, Mei. “Physical Interpretations and Electrode Design Guidelines for Electrochemical Capacitors.” (2018). https://escholarship.org/uc/item/7hr3937x
“The computation for this study was performed on the Hoffman2 cluster hosted by the Academic Technology Services (ATS) at the University of California, Los Angeles, USA.” (pg. xxvii)
“The simulations were run on Hoffman2 shared computing cluster of UCLA with 8 to 12 processors and 32 to 64 GB of RAM.” (pg. 80)
“The simulations were run on Hoffman2 shared computing cluster of UCLA with 4 to 8 processors and 32 to 64 GB of RAM.” (pg. 104)
Chen, Shuming, Amy Y. Chan, Morgan M. Walker, Jonathan A. Ellman, and K. N. Houk. “π-Facial Selectivities in Hydride Reductions of Hindered Endocyclic Iminium Ions.” The Journal of organic chemistry 84, no. 1 (2018): 273-281. https://doi.org/10.1021/acs.joc.8b02603
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 280)
Chen, Shuming, and K. N. Houk. “Origins of stereoselectivity in Mannich reactions catalyzed by chiral vicinal diamines.” The Journal of Organic Chemistry 83, no. 6 (2018): 3171-3176. https://doi.org/10.1021/acs.joc.8b00037
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 3175)
Chen, Shuming, Peiyuan Yu, and K. N. Houk. “Ambimodal Dipolar/Diels–Alder Cycloaddition Transition States Involving Proton Transfers.” Journal of the American Chemical Society 140, no. 51 (2018): 18124-18131. https://doi.org/10.1021/jacs.8b11080
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 18130)
Chen, Shuming, Yu Zheng, Tianjiao Cui, Eric Meggers, and K. N. Houk. “Arylketone π-Conjugation Controls Enantioselectivity in Asymmetric Alkynylations Catalyzed by Centrochiral Ruthenium Complexes.” Journal of the American Chemical Society 140, no. 15 (2018): 5146-5152. https://doi.org/10.1021/jacs.8b00485
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 5151)
Edgar, Thomas F., Michael Baldea, Ofodike Ezekoye, Hari Ganesh, Ankur Kumar, Dan Wanegar, Vincent M. Torres et al. “Industrial Scale Demonstration of Smart Manufacturing, Achieving Transformational Energy Productivity Gains.” (2018). https://doi.org/10.2172/1454266
“The ANSYS Fluent calculation itself requires 80 cores of compute CPUs, 1 TB RAM and a high-speed network for MPI job communications running on an HPC resource like the Hoffman2 cluster at UCLA.” (pg. 17)
Engebretson, Mark J., Jennifer L. Posch, David J. Braun, Wen Li, Qianli Ma, A. C. Kellerman, C‐L. Huang et al. “EMIC wave events during the four GEM QARBM challenge intervals.” Journal of Geophysical Research: Space Physics 123, no. 8 (2018): 6394-6423. https://doi.org/10.1029/2018JA025505
“PSD and adiabatic invariantcomputations were made using codedeveloped by A. C K., the IRBEM library,and the UCLA Hoffman2 cluster.” (pg. 6422)
Fell, Jason Scott. “Computational Exploration of Reactivities and Catalysis of Pericyclic Reactions.” (2018). https://escholarship.org/uc/item/6st5r669
“High performance computing resources were provided by the UCLA Hoffman2 cluster and the NSF Extreme Science and Engineering Discovery Environment (TG-CHE040013N).” (pg. 23)
“This work used computational resources for projects TG-CHE040013N and TG-CHE140139 in the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation grant number ACI-1548562, and computational resources provided by the UCLA IDRE Hoffman2 cluster.” (pg. 65)
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575), and the cluster at HNU, which is supported by the Fundamental Research Funds for the Central Universities.” (pg. 80)
Gilman, Daniel, Simon Birrer, Tommaso Treu, Charles R. Keeton, and Anna Nierenberg. “Probing the nature of dark matter by forward modelling flux ratios in strong gravitational lenses.” Monthly Notices of the Royal Astronomical Society 481, no. 1 (2018): 819-834. https://doi.org/10.1093/mnras/sty2261
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 830)
Hatamizadeh, Ali, Yuanping Song, and Jonathan B. Hopkins. “Optimizing the Geometry of Flexure System Topologies Using the Boundary Learning Optimization Tool.” Mathematical Problems in Engineering 2018 (2018). https://doi.org/10.1155/2018/1058732
“Tis work used computational and storage services associated with the Hofman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 13)
Hormozdiari, Farhad I., Junghyun Jung, Eleazar Eskin, and Jong Wha J. Joo. “Leveraging allelic heterogeneity to increase power of association testing.” bioRxiv (2018): 498360. https://doi.org/10.1101/498360
“For the experiments we used UCLA Shared Hoffman2 Cluster, which currently consists of 1,200+ 64-bit nodes and 13,340 cores, with an aggregate of over 50TB of memory.” (pg. 25)
“The details are provided at https://www.hoffman2.idre.ucla.edu.” (pg. 26)
Huang, Alden Yen-Wen. “Copy Number Variation in Neuropsychiatric Disorders.” (2018). https://escholarship.org/uc/item/94p9m4k7
“The variant calling was performed in the high performance cluster at UCLA called the Hoffman2 cluster.” (pg. 95)
Huang, Hui, and Lingsen Meng. “Slow unlocking processes preceding the 2015 Mw 8.4 Illapel, Chile, earthquake.” Geophysical Research Letters 45, no. 9 (2018): 3914-3922. https://doi.org/10.1029/2018GL077060
“This work relies on the computationaland storage services associated with theHoffman2 Shared Cluster provided byUCLA Institute for Digital Research andEducation’s Research TechnologyGroup.” (pg. 3921)
Jalal, Siavash, and Peter M. Bentler. “Using Monte Carlo normal distributions to evaluate structural models with nonnormal data.” Structural Equation Modeling: A Multidisciplinary Journal 25, no. 4 (2018): 541-557. https://doi.org/10.1080/10705511.2017.1390753
“To expedite the computation process a cluster computation from the Hoffman2 shared cluster1 was used.” (pg. 547)
Jones, Talmage. “Mechanical Design of Graphene Nanoribbon Compliant Mechanisms for Electrostatic Discharge.” (2018). https://escholarship.org/uc/item/7564g5nd
“This portion of the work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 30)
Lin, Janice B., Evan R. Darzi, Ramesh Jasti, Ilhan Yavuz, and K. N. Houk. “Solid-state order and charge mobility in [5]-to [12] cycloparaphenylenes.” Journal of the American Chemical Society 141, no. 2 (2018): 952-960. https://doi.org/10.1021/jacs.8b10699
“Calculations were performed on the Hoffman2 cluster provided by the UCLA Institute of Digital Research and Education’s Research Technology Group and SIMULAB in the Physics Department of Marmara University and also on the NSF-supported Extreme Science and Engineering Discovery Environment (XSEDE)’s Gordon supercomputer (OCI1053575) at the San Diego Supercomputing Center.” (pg. 958)
Listgarten, Jennifer, Michael Weinstein, Benjamin P. Kleinstiver, Alexander A. Sousa, J. Keith Joung, Jake Crawford, Kevin Gao et al. “Prediction of off-target activities for the end-to-end design of CRISPR guide RNAs.” Nature biomedical engineering 2, no. 1 (2018): 38-47. https://doi.org/10.1038/s41551-017-0178-6
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group, and also an Azure-for-Research grant to UCLA.” (pg. 47)
Lleras-Muney, Adriana, and Favien Moreau. “A Unified Law of Mortality: Implications for Economic Analysis.” (2018). https://conference.nber.org/conf_papers/f100294.pdf
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 1)
Lleras-Muney, Adriana, and Flavien Moreau. “A Unified Law of Mortality: Implications for the Long Run Effects of Early Conditions.” (2018). https://static1.squarespace.com/static/5b1a10ca8f51309307434fd8/t/5bf0c6384ae237221b1314dc/1542506062505/The_shape_of_mortality_v13.pdf
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 1)
Martins, Karina, Paul F. Gugger, Jesus Llanderal‐Mendoza, Antonio González‐Rodríguez, Sorel T. Fitz‐Gibbon, Jian‐Li Zhao, Hernando Rodríguez‐Correa, Ken Oyama, and Victoria L. Sork. “Landscape genomics provides evidence of climate‐associated genetic variation in Mexican populations of Quercus rugosa.” Evolutionary Applications 11, no. 10 (2018): 1842-1858. https://doi.org/10.1111/eva.12684
“This work used computational and stor-age services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 1854)
Mei, Bing-Ang, Obaidallah Munteshari, Jonathan Lau, Bruce Dunn, and Laurent Pilon. “Physical interpretations of Nyquist plots for EDLC electrodes and devices.” The Journal of Physical Chemistry C 122, no. 1 (2018): 194-206. https://doi.org/10.1021/acs.jpcc.7b10582
“The computation for this study was performed on the Hoffman2 cluster hosted by the Academic Technology Services (ATS) at the University of California, Los Angeles, U.S.A” (pg. 204)
Mirocha, Jordan, Richard H. Mebane, Steven R. Furlanetto, Krishma Singal, and Donald Trinh. “Unique signatures of Population III stars in the global 21-cm signal.” Monthly Notices of the Royal Astronomical Society 478, no. 4 (2018): 5591-5606. https://doi.org/10.1093/mnras/sty1388
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 5605)
Montoya, Dennis, Priscila R. Andrade, Bruno JA Silva, Rosane MB Teles, Bryan Bryson, Saheli Sadanand, Teia Noel et al. “Dual RNAseq of human leprosy lesions identifies bacterial determinants linked to host immune.” https://www.biorxiv.org/content/10.1101/354407v1.full.pdf
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 24)
Munro, Catriona, Stefan Siebert, Felipe Zapata, Mark Howison, Alejandro Damian-Serrano, Samuel H. Church, Freya E. Goetz, Philip R. Pugh, Steven HD Haddock, and Casey W. Dunn. “Improved phylogenetic resolution within Siphonophora (Cnidaria) with implications for trait evolution.” Molecular phylogenetics and evolution 127 (2018): 823-833. https://doi.org/10.1016/j.ympev.2018.06.030
“Analyses were also conducted on the Hoffman2 cluster of theInstitute for Digital Research and Education of the University ofCalifornia, Los Angele.” (pg 832)
Patel, Anita, Gautam Pulugundla, Sergey Smolentsev, Mohamed Abdou, and Rajendraprasad Bhattacharyay. “Validation of numerical solvers for liquid metal flow in a complex geometry in the presence of a strong magnetic field.” Theoretical and Computational Fluid Dynamics 32, no. 2 (2018): 165-178. https://doi.org/10.1007/s00162-017-0446-9
“All HIMAG simulations used the computational resources of Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 177)
Picazo, Elias, Sarah M. Anthony, Maude Giroud, Adam Simon, Margeaux A. Miller, K. N. Houk, and Neil K. Garg. “Arynes and Cyclic Alkynes as Synthetic Building Blocks for Stereodefined Quaternary Centers.” Journal of the American Chemical Society 140, no. 24 (2018): 7605-7610. https://doi.org/10.1021/jacs.8b02875
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 7609)
Ranganathan, Sudarsan Vasista Srinivasan. “Advances in Protograph-Based LDPC Codes and a Rate Allocation Problem.” (2018). https://escholarship.org/uc/item/2419j1rh
“The work in this dissertation was possible, in large part, due to the computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. xvii)
Rhodes, Tyler J., Sergey Smolentsev, and Mohamed Abdou. “Effect of the length of the poloidal ducts on flow balancing in a liquid metal blanket.” Fusion Engineering and Design 136 (2018): 847-851. https://doi.org/10.1016/j.fusengdes.2018.04.019
“Using the Hoffman2 computer cluster at UCLA, each simulation wasrun in parallel on 128 nodes until steady state solutions were reached asdetermined by the L2 norm of the residuals reaching the order of 10.” (pg. 848)
“This work used computational and storage services associated withthe Hoffman2 Shared Cluster provided by UCLA Institute for DigitalResearch and Education’s Research Technology Group.” (pg. 851)
Scholl, Katie, John Dillashaw, Evan Timpy, Yu-hong Lam, Lindsey DeRatt, Tyler R. Benton, Jacqueline P. Powell, K. N. Houk, and Jeremy B. Morgan. “Quinine-Promoted, Enantioselective Boron-Tethered Diels–Alder Reaction by Anomeric Control of Transition-State Conformation.” The Journal of organic chemistry 83, no. 10 (2018): 5756-5765. https://doi.org/10.1021/acs.joc.8b00938
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation Grant No. ACI-1053575.” (pg. 5764)
Shajib, Anowar J., Tommaso Treu, and Adriano Agnello. “Improving time-delay cosmography with spatially resolved kinematics.” Monthly Notices of the Royal Astronomical Society 473, no. 1 (2018): 210-226. https://doi.org/10.1093/mnras/stx2302
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 225)
Sun, Geng, and Philippe Sautet. “Metastable structures in cluster catalysis from first-principles: Structural ensemble in reaction conditions and metastability triggered reactivity.” Journal of the American Chemical Society 140, no. 8 (2018): 2812-2820. https://doi.org/10.1021/jacs.7b11239
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 2819)
Tran, Anh Tuan. “Computational Fluid Dynamics and Machine Learning Modeling, Operation and Control of Steam Methane Reforming Reactors and Furnaces.” (2018). https://escholarship.org/uc/item/38s0j7qc
“We recognize that the computing time required to complete a simulation of the reformer CFD model by ANSYS Fluent on 80 cores of UCLA’s Hoffman2 cluster is significant (i.e., approximately three full days), yet the upfront investment (i.e., time) makes it possible for us to determine the optimized operating conditions of the reformer.” (pg. 69)
van Spronsen, Matthijs A., Kaining Daunmu, Christopher R. O’Connor, Tobias Egle, Heath Kersell, Judit Oliver-Meseguer, Miquel B. Salmeron, Robert J. Madix, Philippe Sautet, and Cynthia M. Friend. “Dynamics of surface alloys: rearrangement of Pd/Ag (111) induced by CO and O2.” The Journal of Physical Chemistry C 123, no. 13 (2018): 8312-8323. https://doi.org/10.1021/acs.jpcc.8b08849
“The DFT calculations were performed on the HOFFMAN2 cluster at the UCLA Institute for Digital Research and Education (IDRE), and computing resources at Extreme Science and Engineering Discovery Environment (XSEDE) through the allocation CHE170060.” (pg. 8321)
Walker, Morgan M., Shuming Chen, Brandon Q. Mercado, K. N. Houk, and Jonathan A. Ellman. “Formation of aminocyclopentadienes from silyldihydropyridines: Ring contractions driven by anion stabilization.” Angewandte Chemie International Edition 57, no. 22 (2018): 6605-6609. https://doi.org/10.1002/anie.201800596
“Wegratefully acknowledge Eric Paulson (Yale) for NMR assign-ment of 21p and Dr.James Phelan (Yale) for helpfuldiscussions.Density functional theory (DFT) calculationswere performed on the Hoffman2 cluster at the University ofCalifornia, Los Angeles,and the Extreme Science andEngineering Discovery Environment (XSEDE), which issupported by the National Science Foundation (Grant OCI-1053575).” (pg. 6608)
Wang, Hong, Xiaolin Chen, and Gang Li. “Survival Forests with R-Squared Splitting Rules.” Journal of Computational Biology 25, no. 4 (2018): 388-395. https://doi.org/10.1089/cmb.2017.0107
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 394)
Weidl, Martin S., Dan Winske, and Christoph Niemann. “How it cramps the flow: three regimes for the saturation of parallel ion-beam instabilities.” arXiv preprint arXiv:1805.11220 (2018). https://arxiv.org/abs/1805.11220
“Computations were performed on the Hoffman2 cluster at UCLA and made possible by the Bhaumik Center for Theoretical Physics.” (pg. 18)
Witzel, G., G. Martinez, J. Hora, S. P. Willner, M. R. Morris, C. Gammie, E. E. Becklin et al. “Variability timescale and spectral index of Sgr A* in the near infrared: approximate Bayesian computation analysis of the variability of the closest supermassive black hole.” The Astrophysical Journal 863, no. 1 (2018): 15. https://doi.org/10.3847/1538-4357/aace62
“The large number of calculations involved in the massive iterative generation and evaluation of light curves—including both test and final analysis runs—required in total about 60,000 CPU hours on our UCLA Hoffman cluster node and 250,000 CPU hours on the XSEDE super clusters Stampede1, Comet, and Bridges (Towns et al. 2014).” (pg. 12)
“The computations were executed on the clusters Stampede, Comet, Bridges, and SuperMIC. This work used the UCLA Hoffman2 cluster.” (pg. 23)
Xie, Yazhou, Jian Zhang, and Yili Huo. “Simplified drift demand prediction of bridges under liquefaction-induced lateral spreading.” Journal of Bridge Engineering 23, no. 8 (2018): 04018053. https://doi.org/10.1061/(ASCE)BE.1943-5592.0001266
“The research utilized the Hoffman2 cluster of Academic Technology Services at the University of California, Los Angeles, to conduct the numerical simulations presented in this paper.” (pg. 12)
Xue, Xiao-Song, Brian J. Levandowski, Cyndi Qixin He, and K. N. Houk. “Origins of Selectivities in the Stork Diels–Alder Cycloaddition for the Synthesis of (±)-4-Methylenegermine.” Organic letters 20, no. 19 (2018): 6108-6111. https://doi.org/10.1021/acs.orglett.8b02548
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 6110)
Yu, Peiyuan, Cyndi Qixin He, Adam Simon, Wei Li, Rasmus Mose, Mathias Kirk Thøgersen, Karl Anker Jørgensen, and K. N. Houk. “Organocatalytic [6+ 4] Cycloadditions via Zwitterionic Intermediates: Chemo-, Regio-, and Stereoselectivities.” Journal of the American Chemical Society 140, no. 42 (2018): 13726-13735. https://doi.org/10.1021/jacs.8b07575
“Since the discoveries by Diels and Alder, 1 numerous synthetic applications, 2 and subsequent theoretical considerations by Woodward and Hoffmann, 3 Diels−Alder cycloaddition reactions have become standard methods for the construction of six-membered ring systems.” (pg. 13726)
Zhang, Yu, Henry V. Burton, Han Sun, and Mehrdad Shokrabadi. “A machine learning framework for assessing post-earthquake structural safety.” Structural safety 72 (2018): 1-16. https://doi.org/10.1016/j.strusafe.2017.12.001
“The authoris grateful for the high-performance computing resources atUCLA’s Hoffman2 Cluster which were utilized for the largenumbers of NRHAs in this study.” (pg. 15)
Aguirre, Andres, Anh Tran, Liangfeng Lao, Helen Durand, Marquis Crose, and Panagiotis D. Christofides. “CFD modeling of a pilot-scale steam methane reforming furnace.” Advances in Energy Systems Engineering (2017): 75-117. https://link.springer.com/chapter/10.1007/978-3-319-42803-1_4
“The solution of the pilot-scale reformer CFD model is computed in ∼24 h by ANSYSFluent’s parallel solver with 48 cores on UCLA’s Hoffman2 Cluster for which an arbitrarily chosen core is designated as a host process, and the remaining 47 cores are compute-node processes.” (pg. 105)
Al-Bataineh, Nezar, K. N. Houk, Matthias Brewer, and Xin Hong. “(2+ 1)-Cycloaddition Reactions Give Further Evidence of the Nitrenium-like Character of 1-Aza-2-azoniaallene Salts.” The Journal of Organic Chemistry 82, no. 7 (2017): 4001-4005. https://doi.org/10.1021/acs.joc.7b00407
“Calculations were performed on the Hoffman2 cluster at UCLA and the supercomputer cluster at the Department of Chemistry, Zhejiang University.” (pg. 4005)
Asensio, Omar Isaac, and Magali A. Delmas. “The effectiveness of US energy efficiency building labels.” Nature Energy 2, no. 4 (2017): 1-9. https://www.nature.com/articles/nenergy201733
Banerjee, Shibdas, Yun-Fang Yang, Ian D. Jenkins, Yong Liang, Anton A. Toutov, Wen-Bo Liu, David P. Schuman et al. “Ionic and neutral mechanisms for C–H bond silylation of aromatic heterocycles catalyzed by potassium tert-butoxide.” Journal of the American Chemical Society 139, no. 20 (2017): 6880-6887. https://doi.org/10.1021/jacs.6b13032
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF, and the National Facility of the Australian National Computational Infrastructure.” (pg. 6886)
Ben Halima, Taoufik, Wanying Zhang, Imane Yalaoui, Xin Hong, Yun-Fang Yang, Kendall N. Houk, and Stephen G. Newman. “Palladium-catalyzed Suzuki–Miyaura coupling of aryl esters.” Journal of the American Chemical Society 139, no. 3 (2017): 1311-1318. https://doi.org/10.1021/jacs.6b12329
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 1317)
Boon, Byron A., Aaron G. Green, Peng Liu, K. N. Houk, and Craig A. Merlic. “Using ring strain to control 4π-electrocyclization reactions: torquoselectivity in ring closing of medium-ring dienes and ring opening of bicyclic cyclobutenes.” The Journal of Organic Chemistry 82, no. 9 (2017): 4613-4624. https://doi.org/10.1021/acs.joc.7b00203
“Computations were UCLA’s Hoffman2 cluster. ” (pg. 4623)
Champagne, Pier Alexandre, and K. N. Houk. “Influence of endo-and exocyclic heteroatoms on stabilities and 1, 3-dipolar cycloaddition reactivities of mesoionic azomethine ylides and imines.” The Journal of organic chemistry 82, no. 20 (2017): 10980-10988. https://doi.org/10.1021/acs.joc.7b01928
“Computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg 10987)
Chen, Shuming, Xiaoqiang Huang, Eric Meggers, and K. N. Houk. “Origins of Enantioselectivity in Asymmetric Radical Additions to Octahedral Chiral-at-Rhodium Enolates: A Computational Study.” Journal of the American Chemical Society 139, no. 49 (2017): 17902-17907. https://doi.org/10.1021/jacs.7b08650
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 17906)
Cherniawski, Benjamin P., Steven A. Lopez, Edmund K. Burnett, Ilhan Yavuz, Lei Zhang, Sean R. Parkin, Kendall N. Houk, and Alejandro L. Briseno. “The effect of hexyl side chains on molecular conformations, crystal packing, and charge transport of oligothiophenes.” Journal of Materials Chemistry C 5, no. 3 (2017): 582-588. https://doi.org/10.1039/C6TC04612F
“Computer resources also. Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575). S. A. L. thanks the Department of Energy EERE Postdoctoral Fellowship for funding.” (pg. 587)
Crose, Marquis, Anh Tran, and Panagiotis D. Christofides. “Multiscale computational fluid dynamics: Methodology and application to PECVD of thin film solar cells.” Coatings 7, no. 2 (2017): 22. https://doi.org/10.3390/coatings7020022
“By utilizing UCLA’s Hoffman2 computation cluster, up to 80 cores are available for parallel operation resulting in each core containing less than 2000 cells.” (pg. 14)
Doche, A., C. Beekman, Sébastien Corde, J. M. Allen, C. I. Clarke, J. Frederico, S. J. Gessner et al. “Acceleration of a trailing positron bunch in a plasma wakefield accelerator.” Scientific reports 7, no. 1 (2017): 1-7. https://www.nature.com/articles/s41598-017-14524-4
“Simulations were performed on the UCLA Hoffman2 cluster through NSF OCI-1036224.” (pg 7)
Duan, Abing, Peiyuan Yu, Fang Liu, Huang Qiu, Feng Long Gu, Michael P. Doyle, and K. N. Houk. “Diazo esters as dienophiles in intramolecular (4+ 2) cycloadditions: Computational explorations of mechanism.” Journal of the American Chemical Society 139, no. 7 (2017): 2766-2770. https://doi.org/10.1021/jacs.6b12371
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 2768-2769)
Faulk, Sean, Jonathan Mitchell, and Simona Bordoni. “Effects of rotation rate and seasonal forcing on the ITCZ extent in planetary atmospheres.” Journal of the Atmospheric Sciences 74, no. 3 (2017): 665-678. https://doi.org/10.1175/JAS-D-16-0014.1
“Simulations were carried out using the Hoffman2 Cluster hosted by UCLA’s Institute for Digital Research and Education.” (pg 676)
Fell, Jason S., Blanton N. Martin, and K. N. Houk. “Origins of the unfavorable activation and reaction energies of 1-azadiene heterocycles compared to 2-azadiene heterocycles in Diels–Alder reactions.” The Journal of Organic Chemistry 82, no. 4 (2017): 1912-1919. https://doi.org/10.1021/acs.joc.6b02524
“High performance computing resources were provided by the UCLA Hoffman2 cluster and the NSF Extreme Science and Engineering Discovery Environment (TG-CHE040013N).” (pg 1918)
Garg, Deepak. “A Unified Numerical Model for Pool Boiling Curve With Parallel Computing.” (2017). https://escholarship.org/uc/item/5q61h0pq
“The parallel code is executed on UCLA`s Hoffman2 cluster which has 12,516 cores with Ethernet and infiniband interconnects.” (pg. 51)
Grandner, Jessica M., Huiling Shao, Robert H. Grubbs, Peng Liu, and Kendall N. Houk. “Origins of the Stereoretentive Mechanism of Olefin Metathesis with Ru-Dithiolate Catalysts.” The Journal of Organic Chemistry 82, no. 19 (2017): 10595-10600. https://doi.org/10.1021/acs.joc.7b02129
“This work used computational resources for projects TG-CHE040013N and TG-CHE140139 in the Extreme Science and Engineering Discovery Environment (XSEDE),19 which is supported by National Science Foundation grant number ACI-1548562, and computational resources provided by the UCLA IDRE Hoffman2 cluster.” (pg. 10600)
Haghnegahdar, Mojhgan A., Edwin A. Schauble, and Edward D. Young. “A model for 12CH2D2 and 13CH3D as complementary tracers for the budget of atmospheric CH4.” Global Biogeochemical Cycles 31, no. 9 (2017): 1387-1407. https://doi.org/10.1002/2017GB005655
“Allelectronic structure calculations in thisstudy are made using the Gaussian09software package (Gaussian 09:AM6 4 L-G09RevB.01 12 August 2010)on the UCLA Hoffman2 cluster.” (pg. 1405)
Han, Xu, Jiyong Park, Wei Wu, Andres Malagon, Lingyu Wang, Edgar Vargas, Athula Wikramanayake, K. N. Houk, and Roger M. Leblanc. “A resorcinarene for inhibition of Aβ fibrillation.” Chemical science 8, no. 3 (2017): 2003-2009. https://doi.org/10.1039/C6SC04854D
“J. P. and K. N. H. are grateful for utilizing the computational resources of Hoffman2 cluster from UCLA Institute for Digital Research and Education and XSEDE program (TGCHE040013N).” (pg. 2008)
Jordan, Robert Stanley. “Setting the Record Straight: Bottom-Up Carbon Nanostructures via Solid-State Reactions.” (2017). https://search.proquest.com/docview/1986249580?accountid=14512
“This work used computational and storage services associated with the Hoffman2 cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group, the NSF-supported Extreme Science and Engineering Discovery Environment (XSEDE) (OCI-1053575), and high performance research computing resources provided by Texas A&M University (http://hprc.tamu.edu).” (pg. 44)
Lin, Janice B., Yu Jin, Steven A. Lopez, Nathaniel Druckerman, Steven E. Wheeler, and K. N. Houk. “Torsional barriers to rotation and planarization in heterocyclic oligomers of value in organic electronics.” Journal of Chemical Theory and Computation 13, no. 11 (2017): 5624-5638. https://doi.org/10.1021/acs.jctc.7b00709
“This work used computational and storage services associated with the Hoffman2 cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group, the NSF-supported Extreme Science and Engineering Discovery Environment (XSEDE)’s Gordon supercomputer (OCI1053575) at the San Diego Supercomputing Center, and high performance research computing resources provided by Texas A&M University (http://hprc.tamu.edu).” (pg. 5634)
Liu, Fengjiao, Zhongyue Yang, Yanmin Yu, Ye Mei, and K. N. Houk. “Bimodal Evans–Polanyi Relationships in Dioxirane Oxidations of sp3 C–H: Non-perfect Synchronization in Generation of Delocalized Radical Intermediates.” Journal of the American Chemical Society 139, no. 46 (2017): 16650-16656. https://doi.org/10.1021/jacs.7b07988
“Calculations were performed on the Hoffman2 cluster at UCLA, the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575), and the Supercomputer Center at East China Normal University.” (pg. 16656)
Liu, Wen-Bo, David P. Schuman, Yun-Fang Yang, Anton A. Toutov, Yong Liang, Hendrik FT Klare, Nasri Nesnas et al. “Potassium tert-butoxide-catalyzed dehydrogenative C–H silylation of heteroaromatics: a combined experimental and computational mechanistic study.” Journal of the American Chemical Society 139, no. 20 (2017): 6867-6879. https://doi.org/10.1021/jacs.6b13031
Mackey, Joel L., Zhongyue Yang, and K. N. Houk. “Dynamically concerted and stepwise trajectories of the cope rearrangement of 1, 5-hexadiene.” Chemical Physics Letters 683 (2017): 253-257. https://doi.org/10.1016/j.cplett.2017.03.011
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 256)
Maji, Rajat, Pier Alexandre Champagne, K. N. Houk, and Steven E. Wheeler. “Activation mode and origin of selectivity in chiral phosphoric acid-catalyzed oxacycle formation by intramolecular oxetane desymmetrizations.” ACS Catalysis 7, no. 10 (2017): 7332-7339. https://doi.org/10.1021/acscatal.7b02993
“Portions of this research were conducted with resources from the Texas A&M Supercomputing Center, the Hoffman2 cluster at UCLA, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 7338)
Mangul, Serghei, Harry Taegyun Yang, Nicolas Strauli, Franziska Gruhl, Hagit T. Porath, Kevin Hsieh, Linus Chen et al. “Comprehensive analysis of RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues.” bioRxiv (2017): 053041. https://doi.org/10.1101/053041
Mei, Bing-Ang, and Laurent Pilon. “Three-dimensional cyclic voltammetry simulations of EDLC electrodes made of ordered carbon spheres.” Electrochimica Acta 255 (2017): 168-178. https://doi.org/10.1016/j.electacta.2017.09.060
“The simulations were run on Hoffman2 shared computing cluster of UCLA with 8 to 12 processors and 32 to 64 GB of RAM.” (pg. 173); “The computation for this study was performed on the Hoffman2 cluster hosted by the Academic Technology Services (ATS) at the University of California, Los Angeles, USA.” (pg. 177)
Mei, Bing-Ang, Bin Li, Jie Lin, and Laurent Pilon. “Multidimensional cyclic voltammetry simulations of pseudocapacitive electrodes with a conducting nanorod scaffold.” Journal of The Electrochemical Society 164, no. 13 (2017): A3237. https://iopscience.iop.org/article/10.1149/2.1241713jes/meta
“The simulations were run on Hoffman2 shared computing cluster of UCLA with 4 to 8 processors and 32 to 64 GB of RAM.” (pg 3241)
Narayanam, Maruthi Kumar, Gaoyuan Ma, Pier Alexandre Champagne, Kendall N. Houk, and Jennifer M. Murphy. “Synthesis of [18F] fluoroarenes by nucleophilic radiofluorination of N‐arylsydnones.” Angewandte Chemie 129, no. 42 (2017): 13186-13190. https://doi.org/10.1002/ange.201707274
“Computations were performed on the Hoffman2 cluster at UCLA.” (pg. 13189)
Noey, Elizabeth L., Zhongyue Yang, Yanwei Li, Hannah Yu, Rachel N. Richey, Jeremy M. Merritt, Douglas P. Kjell, and K. N. Houk. “Origins of Regioselectivity in the Fischer Indole Synthesis of a Selective Androgen Receptor Modulator.” The Journal of organic chemistry 82, no. 11 (2017): 5904-5909. https://doi.org/10.1021/acs.joc.7b00878
“We are grateful to the National Science Foundation (CHE1361104) for financial support of this research. Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 5908)
Park, Jiyong, Sunny Chun, Thomas A. Bobik, Kendall N. Houk, and Todd O. Yeates. “Molecular dynamics simulations of selective metabolite transport across the propanediol bacterial microcompartment shell.” The Journal of Physical Chemistry B 121, no. 34 (2017): 8149-8154. https://doi.org/10.1021/acs.jpcb.7b07232
“Computations from this work were run and analyzed on the UCLA IDRE Hoffman2 cluster, the Keeneland and Stampede supercomputers through the XSEDE program (TG-CHE040013N), and the UCLA-DOE Cassini cluster, supported by the BER program of the DOE Office of Science under Award No. DE-FC02-2ER63421.” (pg. 8153)
Robert S. Jordan, Yolanda L. Li, Cheng-Wei Lin, Ryan D. McCurdy, Janice B. Lin, Jonathan L. Brosmer, Kristofer L. Marsh, Saeed I. Khan, K. N. Houk, Richard B. Kaner, and Yves Rubin. “Synthesis of N = 8 Armchair Graphene Nanoribbons from Four Distinct Polydiacetylenes,” Journal of the American Chemical Society (2017). 139 (44), 15878-15890 DOI: 10.1021/jacs.7b08800. https://doi.org/10.1021/jacs.7b08800
“This work used computational and storage services associated with the Hoffman2 cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group, the NSF-supported Extreme Science and Engineering Discovery Environment (XSEDE) (OCI-1053575), and high-performance research computing resources provided by Texas A&M University (http://hprc.tamu.edu).” (pg. 15889)
Schaal, Christoph, Robert M’Closkey, and Ajit Mal. “Parametric studies for semi-analytical investigation of plate-mounted resonators.” Health Monitoring of Structural and Biological Systems 2017 10170 (2017): 101700O. https://doi.org/10.1117/12.2262002
“The numerical work was carried out at the UCLA parallel computing facility (Hoffman2 Cluster).” (pg. 8)
Simmons, Bryan J., Marie Hoffmann, Pier Alexandre Champagne, Elias Picazo, Katsuya Yamakawa, Lucas A. Morrill, K. N. Houk, and Neil K. Garg. “Understanding and Interrupting the Fischer Azaindolization Reaction.” Journal of the American Chemical Society 139, no. 42 (2017): 14833-14836. https://doi.org/10.1021/jacs.7b07518
“Computations were performed on the Hoffman2 cluster at UCLA.” (pg. 14836)
Tran, Anh, Andres Aguirre, Helen Durand, Marquis Crose, and Panagiotis D. Christofides. “CFD modeling of a industrial-scale steam methane reforming furnace.” Chemical Engineering Science 171 (2017): 576-598. https://doi.org/10.1016/j.ces.2017.06.001
“Nevertheless, the available computational power (i.e., 80 cores on UCLA’s Hoffman2 Cluster) and memory capacity (i.e., 20.0 GB on UCLA’s Hoffman2 Cluster) are not expected to be sufficient to simulate the reformer CFD model with the more computationally intensive modeling strategies in atimely manner because the reformer mesh is composed of29,099,252 hexahedral grids, 88,798,168 quadrilateral faces and 30,584,930 nodes.” (pg. 585)
“We recognize that the computing time required to complete a simulation of the reformer CFD model by ANSYS Fluent on 80 cores of UCLA’s Hoffman2 cluster is significant (i.e., approximately three full days), yet the upfront investment (i.e., time) makes it possible for us to determine the optimized operating conditions of the reformer.” (pg. 597)
Tran, Anh, Andres Aguirre, Helen Durand, Marquis Crose, and Panagiotis D. Christofides. “Steam methane reforming furnace temperature balancing via CFD model-based optimization.” In 2017 American Control Conference (ACC), pp. 4165-4170. IEEE, 2017. https://doi.org/10.23919/ACC.2017.7963595
“The proposed furnace balancing algorithm solved by Ipopt can generate an optimized FSF distribution and quantitatively estimate the reduction of the temperature nonuniformity of the OTWT distribution within 24 hours using 80 cores of UCLA Hoffman2 Cluster.” (pg. 4170)
Tran, Anh, Andres Aguirre, Marquis Crose, Helen Durand, and Panagiotis D. Christofides. “Temperature balancing in steam methane reforming furnace via an integrated CFD/data-based optimization approach.” Computers & Chemical Engineering 104 (2017): 185-200. https://doi.org/10.1016/j.compchemeng.2017.04.013
“The corresponding CFD data generated from the simulation ofthe reformer CFD model is stored in the reformer CFD database (which is the Hoffman2 computing cluster at UCLA in this work).” (pg. 188)
“Although the reformer CFD model built from the finer reformer mesh is expected to require a longer computational time than the reformer CFD model in Tran et al. (2017) with the computational resources that we have at our disposal (i.e., 80 cores on the Hoffman2 cluster), the CFD data generated by the current reformer CFD model is expected to be a more accurate representation of the experimental data.” (pg. 188)
“Hence, the converging strategy is again utilized in the present work to obtain the CFD data of the reformer CFD model in which the uniform FSF distribution is implemented as the boundary condition, and the CFD data is expected to be determined by the ANSYS Fluent parallel solver after ∼3 days on the 80 private cores on UCLA’s Hoffman2 Cluster.” (pg. 189)
“Each iteration ofthe proposed furnace-balancing scheme solved by Ipopt (Wächter and Biegler, 2006) generates an optimized FSF distribution and quantitatively estimates the reduction of the degree of nonuniformity ofthe OTWT distribution within 30 h using 80 cores of the UCLA Hoffman2 Cluster, and ∼90% of the computational time is designated to the data generation process.” (pg. 194)
Wenz, Katharina Marie, Peng Liu, and K. N. Houk. “Intramolecular C–H Activation Reactions of Ru (NHC) Complexes Combined with H2 Transfer to Alkenes: A Theoretical Elucidation of Mechanisms and Effects of Ligands on Reactivities.” Organometallics 36, no. 18 (2017): 3613-3623. https://doi.org/10.1021/acs.organomet.7b00531
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF(ACI-1053575).” (pg. 3622)
Xie, Yazhou, Yili Huo, and Jian Zhang. “Development and validation of p‐y modeling approach for seismic response predictions of highway bridges.” Earthquake Engineering & Structural Dynamics 46, no. 4 (2017): 585-604. https://doi.org/10.1002/eqe.2804
“The research utilizes the Hoffman2 cluster of Academic Technology Services at University of California, Los Angeles, to conduct the numerical simulations presented in this paper.” (pg. 603)
Yang, Yun-Fang, Gang Chen, Xin Hong, Jin-Quan Yu, and K. N. Houk. “The origins of dramatic differences in five-membered vs six-membered chelation of Pd (II) on efficiency of C (sp3)–H bond activation.” Journal of the American Chemical Society 139, no. 25 (2017): 8514-8521. https://doi.org/10.1021/jacs.7b01801
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 8520)
Yang, Yun-Fang, Peiyuan Yu, and K. N. Houk. “Computational exploration of concerted and zwitterionic mechanisms of Diels–Alder reactions between 1, 2, 3-triazines and enamines and acceleration by hydrogen-bonding solvents.” Journal of the American Chemical Society 139, no. 50 (2017): 18213-18221. https://doi.org/10.1021/jacs.7b08325
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 18220)
Yavuz, Ilhan, and K. N. Houk. “Mesoscale ordering and charge-transport of crystalline spiro-OMeTAD organic semiconductors.” The Journal of Physical Chemistry C 121, no. 2 (2017): 993-999. https://doi.org/10.1021/acs.jpcc.6b08624
“Simulations were performed at Hoffman2 cluster at UCLA mainly and the Simulation Research Laboratory, Department of Physics, MU, under the Research Project FEN-C-DRP-120613-0273 sup- ported by MU, Scientific Research Commission (BAPKO).” (pg 998)
Yu, Peiyuan, Tiffany Q. Chen, Zhongyue Yang, Cyndi Qixin He, Ashay Patel, Yu-hong Lam, Ching-Yang Liu, and K. N. Houk. “Mechanisms and origins of periselectivity of the ambimodal [6+ 4] cycloadditions of tropone to dimethylfulvene.” Journal of the American Chemical Society 139, no. 24 (2017): 8251-8258. https://doi.org/10.1021/jacs.7b02966
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 8257)
Yu, Peiyuan, Wei Li, and K. N. Houk. “Mechanisms and origins of selectivities of the Lewis acid-catalyzed Diels–Alder reactions between arylallenes and acrylates.” The Journal of Organic Chemistry 82, no. 12 (2017): 6398-6402. https://doi.org/10.1021/acs.joc.7b01132
“Calculations were performed on the Hoffman2 cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI1053575).” (pg. 6402)
Zhang, Shuo-Qing, Buck LH Taylor, Chong-Lei Ji, Yuan Gao, Michael R. Harris, Luke E. Hanna, Elizabeth R. Jarvo, K. N. Houk, and Xin Hong. “Mechanism and origins of ligand-controlled stereoselectivity of Ni-catalyzed Suzuki–Miyaura coupling with benzylic esters: a computational study.” Journal of the American Chemical Society 139, no. 37 (2017): 12994-13005. https://doi.org/10.1021/jacs.7b04973
“Calculations were performed on the supercomputer cluster at Department of Chemistry, Zhejiang University, and the Hoffman2 cluster at UCLA.” (pg. 13003)
Zhao, Jiannan, Jonathan L. Brosmer, Qingxuan Tang, Zhongyue Yang, K. N. Houk, Paula L. Diaconescu, and Ohyun Kwon. “Intramolecular crossed [2+ 2] photocycloaddition through visible light-induced energy transfer.” Journal of the American Chemical Society 139, no. 29 (2017): 9807-9810. https://doi.org/10.1021/jacs.7b05277
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI1053575).” (pg. 9810)
Aralis, Hilary Jeanne. “Modeling Multistate Models with Back Transitions: Statistical Challenges and Applications.” (2016). https://escholarship.org/uc/item/0g055686
Arneson, Douglas, Anindya Bhattacharya, Le Shu, Ville-Petteri Mäkinen, and Xia Yang. “Mergeomics: a web server for identifying pathological pathways, networks, and key regulators via multidimensional data integration.” BMC genomics 17, no. 1 (2016): 722. https://link.springer.com/article/10.1186/s12864-016-3057-8
Asensio, Omar Isaac, and Magali A. Delmas. “The dynamics of behavior change: Evidence from energy conservation.” Journal of Economic Behavior & Organization 126 (2016): 196-212. https://doi.org/10.1016/j.jebo.2016.03.012
“This study used high performance computing resources on the UCLA Hoffman2 Cluster provided by the Institute for Digital Research and Education’s Research Technology group.” (pg. 210)
Badr, Yasmine, Andres Torres, and Puneet Gupta. “Mask assignment and DSA grouping for DSA-MP hybrid lithography for sub-7 nm contact/via holes.” IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems 36, no. 6 (2016): 913-926. https://doi.org/10.1109/TCAD.2016.2614262
Bartholomé, Jérôme, Marina de Vega, Isabelle Lesur, Franck Salin, Emilie Chancerel, Jean-Baptiste Lamy, Joerg Bohlmann, and Christophe Plomion. “Genetic analysis of oleoresin terpenoid content in maritime pines.” In Genomics and Forest Tree Genetics Conference. 2016. https://hal.inrae.fr/hal-02743607/document
“We used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA.” (pg. 46)
Bhowmik, Arka, and Laurent Pilon. “Can spherical eukaryotic microalgae cells be treated as optically homogeneous?.” JOSA A 33, no. 8 (2016): 1495-1503. https://doi.org/10.1364/JOSAA.33.001495
“The computation for this study was performed on the Hoffman2 cluster hosted by the Academic Technology Services (ATS) at the University of California, Los Angeles, USA.” (pg. 1502)
Bogdan, Ida Katičić, Krunoslav Sever, Martina Temunović, Daniel Krstonošić, Željko Škvorc, Jozo Franjić, and Saša Bogdan. “Genetic differentitation of pedunculate oak (Quercus robur L.) provenances along a latitude gradient in responses to drought and rewatering.” In IUFRO–Genomics and Forest Tree Genetics Conference. 2016. https://bib.irb.hr/datoteka/891385.Abstract_Book_IUFRO2016.pdf
“We used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA.” (pg. 46)
Champagne, Pier Alexandre, and K. N. Houk. “Origins of selectivity and general model for chiral phosphoric acid-catalyzed oxetane desymmetrizations.” Journal of the American Chemical Society 138, no. 38 (2016): 12356-12359. https://doi.org/10.1021/jacs.6b08276
“Computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 12359)
Cooper, Aaron. “Integration site-based clonality analyses of potency of stem and progenitor cells and safety in human gene and cell therapy.” (2016). https://search.proquest.com/openview/ab466c426f20b3dbfb235e131acb9742/1?pq-origsite=gscholar&cbl=18750&diss=y
“I also thank the staff of the UCLA Institute for Digital Research and Education (IDRE) who maintain the Hoffman2 cluster, which has been an essential resource in my research.” (pg. xii)
Daniels, Rose Ruiz, Richard S. Taylor, María Jesús Serra-Varela, Mark Beaumont, Francesca Bagnoli, Giovanni G. Vendramin, Santiago González-Martínez, and Delphine Grivet. “Inferring selection during long range colonisation: the Aleppo pine (Pinus halepensis) in the Mediterranean Basin.” In Genomics and Forest Tree Genetics Conference, pp. 134-p. 2016. https://hal.inrae.fr/hal-02741325/document
“We used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA.” (pg 46)
Dong, Xiaofei. “Theoretical Studies on Organic Catalysis: N-Heterocyclic Carbene Catalyzed Ring-Opening Polymerization and Initiation of Z-selective Olefin Metathesis with Ruthenium Catalysts.” PhD diss., UCLA, 2016. https://escholarship.org/uc/item/2gw44013
“Calculations were performed on supercomputer platforms including: Copper and Excalibur provided by the Department of Defense (DoD) High Performance Computing Modernization Program; the UCLA Hoffman2 cluster; and Stampede at the Texas Advanced Computing Center provided by NSF-supported XSEDE.” (pg. 8)
Esposito, Thomas M., Michael P. Fitzgerald, James R. Graham, Paul Kalas, Eve J. Lee, Eugene Chiang, Gaspard Duchêne et al. “Bringing “The Moth” to light: a planet-sculpting scenario for the HD 61005 debris disk.” The Astronomical Journal 152, no. 4 (2016): 85. http://dx.doi.org/10.3847/0004-6256/152/4/85
“This simulation was run using the Python module emcee (Foreman-Mackey et al. 2013) with 20 temperatures, 250 walkers, 4150 steps per walker, and a 350-step “burn-in” period on 64 cores of UCLA’s Hoffman2 Cluster.” (pg 10); “This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Educations Research Technology Group.” (pg. 16)
Faivre-Rampant, Patricia, Véronique Jorge, Giusi Zaina, Stefania Giacomello, Vincent Segura, Simone Scalabrin, Vanina Guérin et al. “A new Genomic resource for Populus nigra and its deployment for genetic studies.” IUFRO Genomics and Forest Tree Genetics (2016). https://hal.inrae.fr/hal-02743801
Faulk, Sean, Jonathan Mitchell, and Simona Bordoni. “Dynamical constraints on the ITCZ extent in planetary atmospheres.” J. Atmos. Sci., Submitted (2016). http://web.gps.caltech.edu/~bordoni/docs/Faulk_ITCZ_revised.pdf
“Simulations were carried out using the Hoffman2 Cluster hosted by UCLA’s 627 Institute for Digital Research and Education” (pg. 29)
Fichot, Régis, Laure Bouyer, Philippe Label, Tete Severien Barigah, Hervé Cochard, Françoise Laurans, and Franck Brignolas. “Drought-induced plasticity in daily stem radius fluctuations and relationships with xylem hydraulics in hybrid poplars.” IUFRO Genomics and Forest Tree Genetics (2016). https://hal.inrae.fr/hal-02739968
Freiberg, Oren, Jens Palsberg, and Mahdi Eslamimehr. “Retargetable Communication for Distributed Programs.” In 2016 12th International ACM SIGSOFT Conference on Quality of Software Architectures (QoSA), pp. 21-30. IEEE, 2016. https://doi.org/10.1109/QoSA.2016.8
“We ran our experiments, in Figure 14 and Figure 15, on the Hoffman2 cluster, with each node having an Intel Nehalem 2.53GHz CPU with 4GB of memory and all interconnected via Ethernet.” (pg. 27); “Figure 14 and 15 illustrate the average execution time on the Hoffman2 cluster over five runs of the X10-2.1.2 implementation and our implementation.” (pg. 28)
Ganushkina, N., S. Dubyagin, M. Balikhin, S. Walker, T. Arber, and P. Wintoft. “Prediction Of Geospace Radiation Environment and Solar wind parameterS Work Package 5 Low energy electrons model.” (2016). https://ssg.group.shef.ac.uk/progress/deliverables/D5.2.pdf
Gebreselassie, Mesfin Nigussie, Kévin Ader, Nathalie Boizot, Jean-Paul Charpentier, Ana Alves, Fabiana Rita, José Carlos Rodrigues et al. “Development of Near-infrared (NIR) spectroscopy calibrations for the genetic analysis of wood properties in natural populations of Populus nigra.” IUFRO Genomics and Forest Tree Genetics (2016). https://hal.inrae.fr/hal-02741031
Gessner, Spencer, Erik Adli, James M. Allen, Weiming An, Christine I. Clarke, Chris E. Clayton, Sebastien Corde et al. “Demonstration of a positron beam-driven hollow channel plasma wakefield accelerator.” Nature communications 7, no. 1 (2016): 1-6. https://www.nature.com/articles/ncomms11785?origin=ppub
“Simulations were performed on the UCLA Hoffman2 cluster NSF OCI-1036224.” (pg. 6)
Grandner, Jessica M., Ralph A. Cacho, Yi Tang, and K. N. Houk. “Mechanism of the P450-catalyzed oxidative cyclization in the biosynthesis of griseofulvin.” ACS catalysis 6, no. 7 (2016): 4506-4511. https://doi.org/10.1021/acscatal.6b01068
“We are thankful to the NSF funded XSEDE supercomputer resources (No. OCI-1053575) and the UCLA IDRE Hoffman2 cluster for the computational resources.” (pg. 4511)
Harrison, Theresa M., Zanjbeel Mahmood, Edward P. Lau, Alexandra M. Karacozoff, Alison C. Burggren, Gary W. Small, and Susan Y. Bookheimer. “An Alzheimer’s disease genetic risk score predicts longitudinal thinning of hippocampal complex subregions in healthy older adults.” Eneuro 3, no. 3 (2016). https://dx.doi.org/10.1523%2FENEURO.0098-16.2016
“We thank the Education Research Technology Group of the UCLA Institute for Digital Research for the use of computational and storage services associated with the Hoffman2 Shared Cluster.” (pg. 2)
Heng, Ri-Liang, and Laurent Pilon. “Radiation characteristics and effective optical properties of dumbbell-shaped cyanobacterium Synechocystis sp.” Journal of Quantitative Spectroscopy and Radiative Transfer 174 (2016): 65-78. https://doi.org/10.1016/j.jqsrt.2016.01.023
“The computation for this study was performed on the Hoffman2 cluster hosted by the Academic Technology Services (ATS) at the University of California, Los Angeles.” (pg. 77)
Ita, Harald, Fernando Febres Cordero, and Philipp Hofmann. “Di-vector Boson Production in Association with Multiple Jets at the LHC.” In The European Physical Society Conference on High Energy Physics, vol. 234, p. 493. SISSA Medialab, 2016. https://pos.sissa.it/234/493/pdf
“This work was performed on the bwUniCluster funded by the Ministry of Science, Research and the Arts Baden-Württemberg and the Universities of the State of BadenWürttemberg, Germany, within the framework program bwHP, as well as using the computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 7)
Jorge, Véronique, Patricia Faivre-Rampant, Vanina Guérin, Marie-Christine Le Paslier, Aurélie Berard, Aurelie Chauveau, Vincent Segura, Catherine Bastien, Marc Villar, and Arnaud Dowkiw. “Napoleonian legacy in Populus nigra populations.” IUFRO Genomics and Forest Tree Genetics (2016). https://hal.inrae.fr/hal-02742776
Kwon, Joseph, and Panagiotis D. Christofides. “Multiscale Model Parallelization and Run-to-Run Control of Batch Protein Crystallization.” https://folk.ntnu.no/skoge/prost/proceedings/focapo-cpc-2017/FOCAPO-CPC%202017%20Contributed%20Papers/6_CPC_Contributed.pdf
“In this work, the Hoffman2 cluster at UCLA which consists of 1200 nodes with a total of 13,340 cores and over 50TB of memory, is used along with MPI settings for the simulations of all the batch crystallization runs.” (pg. 4)
Le Gac, Anne-Laure, Clément Lafon-Placette, Didier Chauveau, Vincent Segura, Régis Fichot, Alain Delaunay, Isabelle Lejan, Franck Brignolas, Steven H. Strauss, and Stéphane Maury. “Epigenomics and tree phenotypic plasticity in response to water deficit.” IUFRO Genomics and Forest Genetics (2016). https://hal.inrae.fr/hal-02743532
Le Gac, Anne-Laure, Régis Fichot, Marie Mirouze, Vincent Segura, Alain Delaunay, Jorg Tost, Isabelle Le Jan et al. “Drought-induced acclimation of DNA-hypomethylated poplars.” IUFRO Genomics and Forest Tree Genetics (2016). https://hal.inrae.fr/hal-02742078
Lee, Juneyoung, Jessica M. Grandner, Keary M. Engle, K. N. Houk, and Robert H. Grubbs. “In situ catalyst modification in atom transfer radical reactions with ruthenium benzylidene complexes.” Journal of the American Chemical Society 138, no. 22 (2016): 7171-7177. https://doi.org/10.1021/jacs.6b03767
“Calculations were performed using the NSF funded (OCI-1053575) Extreme Science and Engineering Discovery Environment (XSEDE) and the UCLA Hoffman2 Cluster.” (pg. 7176-7-77)
Lefevre, Francois, Philippe Cubry, Sylvie Oddou-Muratorio, and Ivan Scotti. “Polygenic adaptation in a hierarchical population structure.” In IUFRO Conférence Genomics and Forest Tree Genetics. 2016. https://hal.inrae.fr/hal-02793100
Lemos, Nuno, J. L. Martins, F. S. Tsung, J. L. Shaw, K. A. Marsh, Felicie Albert, B. B. Pollock, and Chan Joshi. “Self-modulated laser wakefield accelerators as x-ray sources.” Plasma Physics and Controlled Fusion 58, no. 3 (2016): 034018. https://iopscience.iop.org/article/10.1088/0741-3335/58/3/034018/meta
“Simulation work done on the Hoffman2 Cluster at UCLA and on NERSC.” (pg. 10)
Li, Zhe, Thomas Bally, Kendall N. Houk, and Weston Thatcher Borden. “Variations in Rotational Barriers of Allyl and Benzyl Cations, Anions, and Radicals.” The Journal of Organic Chemistry 81, no. 20 (2016): 9576-9584. https://doi.org/10.1021/acs.joc.6b01530 “Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE) supported by the NSF.” (pg. 9584)
Lin, Bernice, Peiyuan Yu, Cyndi Qixin He, and K. N. Houk. “Origins of regioselectivity in 1, 3-dipolar cycloadditions of nitrile oxides with alkynylboronates.” Bioorganic & Medicinal Chemistry 24, no. 20 (2016): 4787-4790. https://doi.org/10.1016/j.bmc.2016.07.032 “Calculations were performed on the Hoffman2cluster at UCLA and the Extreme Science and Engineering Discov-ery Environment (XSEDE), which is supported by the NationalScience Foundation (OCI-1053575).” (pg. 4789)
Listgarten, Jennifer, Michael Weinstein, Melih Elibol, Luong Hoang, John Doench, and Nicolo Fusi. “Predicting off-target effects for end-to-end CRISPR guide design.” bioRxiv (2016): 078253. https://doi.org/10.1101/078253
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group, and made use of an Azure-forResearch grant to UCLA.” (pg. 5)
Liu, Fengjiao, Zhongyue Yang, Ye Mei, and K. N. Houk. “QM/QM′ Direct Molecular Dynamics of Water-Accelerated Diels–Alder Reaction.” The Journal of Physical Chemistry B 120, no. 26 (2016): 6250-6254. https://doi.org/10.1021/acs.jpcb.6b02336
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575). F.L. and Y.M. thank the National Natural Science Foundation of China (Grant No. 21173082).” (pg 6253)
Lotfollahi, M., M. M. Alinia, and E. Taciroglu. “Validated finite element techniques for quasi-static cyclic response analyses of braced frames at sub-member scales.” Engineering Structures 106 (2016): 222-242. https://doi.org/10.1016/j.engstruct.2015.07.049
“He gratefully acknowledges the UCLA’s financial support and for allowing the use of the Hoffman2 Cluster for analyses.” (pg. 241)
Mangul, Serghei, Harry Taegyun Yang, Nicolas Strauli, Franziska Gruhl, Hagit T. Porath, Kevin Hsieh, Linus Chen et al. “Comprehensive analysis of RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues.” bioRxiv (2017): 053041. https://doi.org/10.1101/053041
“The average 629 runtime on Hoffman2 Cluster for Tophat per million reads was 2.5 hours; STAR, 0.13 630 hours; and Novoalign, 9.1 hours.
Michotey, Célia, Christel Anger, François Ehrenmann, Odile Rogier, Véronique Jorge, Catherine Bastien, Christophe Plomion, Christian Pichot, Hadi Quesneville, and Anne-Francoise Adam-Blondon. “Forest tree GnpIS: an information system dedicated to forest tree genetics, genomics and phenomics.” IUFRO Genomics and Forest Tree Genetics (2016). https://hal.inrae.fr/hal-02740283
Munoz, Facundo, Leopoldo Sanchez Rodriguez, and Eduardo Cappa. “Spatial and competition effects in tree breeding.” IUFRO Genomics and Forest Tree Genetics (2016). https://hal.inrae.fr/hal-02740159
Noey, Elizabeth L., Gonzalo Jiménez-Osés, Derrick JL Clive, and K. N. Houk. “Computations Reveal That Electron-Withdrawing Leaving Groups Facilitate Intramolecular Conjugate Displacement Reactions by Negative Hyperconjugation.” The Journal of Organic Chemistry 81, no. 10 (2016): 4290-4294. https://doi.org/10.1021/acs.joc.6b00691
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 4294)
Park, Jiyong, Joseph J. McDonald, Russell C. Petter, and K. N. Houk. “Molecular dynamics analysis of binding of kinase inhibitors to WT EGFR and the T790M mutant.” Journal of Chemical Theory and Computation 12, no. 4 (2016): 2066-2078. https://doi.org/10.1021/acs.jctc.5b01221”Computational resources, Hoffman2 cluster from UCLA Institute for Digital Research and Education and Keeneland supercomputer through XSEDE program (TGCHE040013N), are gratefully acknowledged.” (pg. 2076)
Ranganathan, Sudarsan VS, Kasra Vakilinia, Dariush Divsalar, and Richard D. Wesel. “Universal rate-compatible LDPC code families for any increment ordering.” In 2016 9th International Symposium on Turbo Codes and Iterative Information Processing (ISTC), pp. 101-105. IEEE, 2016. https://doi.org/10.1109/ISTC.2016.7593085
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 101)
Rodriguez, Leopoldo Sanchez, and Facundo Munoz. “breedR: Statistical methods for forest genetic resources analysts.” IUFRO Genomics and Forest Tree Genetics (2016). https://hal.inrae.fr/hal-02741136
Rogier, Odile, Souhila Amanzougarene, Marie-Claude Lesage Descauses, Sandrine Aubourg-Balzergue, Veronique Brunaud, José Caius, Ludivine Soubigou-Taconnat, Véronique Jorge, and Vincent Segura. “Nucleotide diversity of Populus nigra transcriptomes.” IUFRO Genomics and Forest Tree Genetics (2016): np. https://hal.archives-ouvertes.fr/hal-01456005/document
“We used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA. ” (pg. 46)
Rosebrugh, L. E., T. S. Ahmed, V. M. Marx, J. Hartung, P. Liu, J. G. López, K. N. Houk, and R. H. Grubbs. “Probing stereoselectivity in ring-opening metathesis polymerization mediated by cyclometalated ruthenium-based catalysts: a combined experimental and computational study.” Journal of the American Chemical Society 138, no. 4 (2016): 1394-1405. https://doi.org/10.1021/jacs.5b12277
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 1404)
Segura, Vincent, Marie-Claude Lesage Descauses, Jean-Paul Charpentier, Kévin Kinkel, Claire Mandin, Kévin Ader, Nassim Belmokhtar et al. “A systems biology approach for identifying candidate genes involved in the natural variability of biomass yield and chemical properties in black poplar.” IUFRO Genomics and Forest Tree Genetics (2016): np. https://hal.archives-ouvertes.fr/hal-01456004/document
“We used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA.” (pg 46)
Shaw, J. L., N. Lemos, K. A. Marsh, F. S. Tsung, W. B. Mori, and C. Joshi. “Estimation of direct laser acceleration in laser wakefield accelerators using particle-in-cell simulations.” Plasma Physics and Controlled Fusion 58, no. 3 (2016): 034008. https://iopscience.iop.org/article/10.1088/0741-3335/58/3/034008/meta
“Simulation work done on the Hoffman2 cluster at UCLA and on the Edison cluster at NERSC.” (pg. 7)
Shaw, J. L., N. Vafaei-Najafabadi, K. A. Marsh, N. Lemos, F. S. Tsung, W. B. Mori, and C. Joshi. “Satisfying the direct laser acceleration resonance condition in a laser wakefield accelerator.” In AIP Conference Proceedings, vol. 1777, no. 1, p. 040014. AIP Publishing LLC, 2016. https://doi.org/10.1063/1.4965616
“Simulation work done on the Hoffman2 Cluster at UCLA.” (pg. 5)
Simon, Adam, Alexander J. Yeh, Yu-hong Lam, and K. N. Houk. “Origins of Stereoselectivity of Chiral Vicinal Diamine-Catalyzed Aldol Reactions.” The Journal of organic chemistry 81, no. 24 (2016): 12408-12415. https://doi.org/10.1021/acs.joc.6b02542
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s (IDRE) Research Technology Group.” (pg. 12414)
Sork, Victoria L., Sorel T. Fitz-Gibbon, Daniela Puiu, Marc Crepeau, Paul F. Gugger, Rachel Sherman, Kristian Stevens, Charles H. Langley, Matteo Pellegrini, and Steven L. Salzberg. “First draft assembly and annotation of the genome of a California endemic oak Quercus lobata Née (Fagaceae).” G3: Genes, Genomes, Genetics 6, no. 11 (2016): 3485-3495. https://doi.org/10.1534/g3.116.030411
“Gene Bioinformatic Analyses were conducted through Hoffman2 Cluster at the UCLA.” (pg 3493)
Wang, Zhiqiang, and Sudip Chakravarty. “Onsager rule, quantum oscillation frequencies, and the density of states in the mixed-vortex state of cuprates.” Physical Review B 93, no. 18 (2016): 184505. https://doi.org/10.1103/PhysRevB.93.184505
Yang, Yun-Fang, K. N. Houk, and Yun-Dong Wu. “Computational Exploration of RhIII/RhV and RhIII/RhI Catalysis in Rhodium (III)-Catalyzed C–H Activation Reactions of N-Phenoxyacetamides with Alkynes.” Journal of the American Chemical Society 138, no. 21 (2016): 6861-6868. https://doi.org/10.1021/jacs.6b03424
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 6867)
Yang, Yun-Fang, Yong Liang, Fang Liu, and K. N. Houk. “Diels–Alder reactivities of benzene, pyridine, and di-, tri-, and tetrazines: The roles of geometrical distortions and orbital interactions.” Journal of the American Chemical Society 138, no. 5 (2016): 1660-1667. https://doi.org/10.1021/jacs.5b12054
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 1665-1666)
Yang, Zhongyue, Peiyuan Yu, and K. N. Houk. “Molecular dynamics of dimethyldioxirane C–H oxidation.” Journal of the American Chemical Society 138, no. 12 (2016): 4237-4242. https://doi.org/10.1021/jacs.6b01028
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation.” (pg 4241)
Yavuz, Ilhan, Steven A. Lopez, Janice B. Lin, and K. N. Houk. “Quantitative prediction of morphology and electron transport in crystal and disordered organic semiconductors.” Journal of Materials Chemistry C 4, no. 47 (2016): 11238-11243. https://doi.org/10.1039/C6TC03823A
Yu, Peiyuan, Zhongyue Yang, Yong Liang, Xin Hong, Yanwei Li, and K. N. Houk. “Distortion-controlled reactivity and molecular dynamics of Dehydro-Diels–Alder reactions.” Journal of the American Chemical Society 138, no. 26 (2016): 8247-8252. https://doi.org/10.1021/jacs.6b04113
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (Grant OCI-1053575).” (pg. 8251)
Amiri, Behzad. “Theory and Practice of Non-Binary Graph-Based Codes: A Combinatorial View.” (2015). https://escholarship.org/uc/item/8cr1h8d7
“All the simulation results presented in this paper were performed over a six month period on the Hoffman2 Cluster which is a part of High Performance Computing Resources at UCLA. The Hoffman2 cluster has more than 800 machines and about 7000 cores. The CPUs have 8, 12 or 16 cores with speed of 2:2 3:0 GHz. Each core has 1GB, 4GB or 8GB of memory. The Hoffman2 cluster uses the CentOS Linux 6:2 Operating System.” (pg. 30, 94)
Asari, Austin H., Yu-hong Lam, Marcus A. Tius, and K. N. Houk. “Origins of the Stereoselectivity in a Thiourea–Primary Amine-Catalyzed Nazarov Cyclization.” Journal of the American Chemical Society 137, no. 40 (2015): 13191-13199. https://doi.org/10.1021/jacs.5b08969
“The computations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI1053575).” (pg. 13198)
Boren, David Scott. “Agent-Based Modeling for HIV Prevention.” (2015). https://escholarship.org/uc/item/0mb18558
“Due to the huge number of iterations required, we implemented our agent-based models in R with the aid of the Hoffman2 cluster for both calibration procedures.” (pg 83)
Chung, Tim S., Steven A. Lopez, K. N. Houk, and Miguel A. Garcia-Garibay. “Stereospecific Synthesis of Substituted Aziridines by a Crystal-to-Crystal Photodenitrogenation of Δ2-1, 2, 3-Triazolines.” Organic letters 17, no. 18 (2015): 4568-4571. https://doi.org/10.1021/acs.orglett.5b02290
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation Grant Number OCI-10535.” (pg 4570)
Cokus, Shawn J., Paul F. Gugger, and Victoria L. Sork. “Evolutionary insights from de novo transcriptome assembly and SNP discovery in California white oaks.” BMC genomics 16, no. 1 (2015): 552. https://doi.org/10.1186/s12864-015-1761-4
“We also acknowledge the University of California Reserve System and the California Department of Parks and Recreation for access to some sample sites; the Neuroscience Genomics Core at UCLA for its sequencing facilities; and the computational services available through the Hoffman2 Shared Cluster provided by the UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 15)
Frewen, Shane Franklin Nishi. “Eccentric Planets around Evolved Stars.” (2015). https://escholarship.org/uc/item/7qx5n8fd
“We ran the simulation, as well as those in Sections 2.4 and 2.6, on the UCLA Institute for Digital Research and Education (IDRE) Hoffman2 cluster using the Mercury integrator package (Chambers, 1999).” (pg. 12)
He, Cyndi Qixin, Tiffany Q. Chen, Ashay Patel, Sedef Karabiyikoglu, Craig A. Merlic, and K. N. Houk. “Distortion, tether, and entropy effects on transannular Diels–Alder cycloaddition reactions of 10–18-membered rings.” The Journal of organic chemistry 80, no. 21 (2015): 11039-11047. https://doi.org/10.1021/acs.joc.5b02288
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 11046)
Heidarzadeh, Bahareh. “Dynamic Stresses in Foundation Soils from Soil-Structure Interaction.” (2015). https://escholarship.org/uc/item/6dz0m305
“I would also like to thank Tajendra Vir Singh for helping me using the Hoffman2 Cluster at UCLA.” (pg. xix)
Herbert, Myles B., Benjamin A. Suslick, Peng Liu, Lufeng Zou, Peter K. Dornan, K. N. Houk, and Robert H. Grubbs. “Cyclometalated Z-selective ruthenium metathesis catalysts with modified N-chelating groups.” Organometallics 34, no. 12 (2015): 2858-2869. https://doi.org/10.1021/acs.organomet.5b00185
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI1053575).” (pg. 2868)
Honda, Kazuya, Steven A. Lopez, K. N. Houk, and Koichi Mikami. “Mono-, Di-, and Trifluoroalkyl Substituent Effects on the Torquoselectivities of Cyclobutene and Oxetene Electrocyclic Ring Openings.” The Journal of organic chemistry 80, no. 23 (2015): 11768-11772. https://doi.org/10.1021/acs.joc.5b01361
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation Grant Number OCI-10535.” (pg. 11772)
Hong, Xin, Daniel A. Bercovici, Zhongyue Yang, Nezar Al-Bataineh, Ramya Srinivasan, Ram C. Dhakal, K. N. Houk, and Matthias Brewer. “Mechanism and Dynamics of Intramolecular C–H Insertion Reactions of 1-Aza-2-azoniaallene Salts.” Journal of the American Chemical Society 137, no. 28 (2015): 9100-9107. https://doi.org/10.1021/jacs.5b04474
“We are grateful to the National Scientific Foundation (CHE1361104 to K.N.H. and CHE-1362286 to M.B.) for financial support of this research. Calculations were performed on the Hoffman2 Cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 9106)
Hong, Xin, Jinglin Wang, Yun-Fang Yang, Lisi He, Chun-Yu Ho, and K. N. Houk. “Computational exploration of mechanism and selectivities of (NHC) nickel (II) hydride-catalyzed hydroalkenylations of styrene with α-olefins.” ACS Catalysis 5, no. 9 (2015): 5545-5555. https://doi.org/10.1021/acscatal.5b01075
“K.N.H. thanks the NSF (CHE-1361104) for financial support of this research. Calculations were performed on the Hoffman2 Cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 5553)
Hooper, Joel F., Natalie C. James, Esra Bozkurt, Viktorya Aviyente, Jonathan M. White, Mareike C. Holland, Ryan Gilmour, Andrew B. Holmes, and K. N. Houk. “Medium-Ring Effects on the Endo/Exo Selectivity of the Organocatalytic Intramolecular Diels–Alder Reaction.” The Journal of organic chemistry 80, no. 24 (2015): 12058-12075. https://doi.org/10.1021/acs.joc.5b02037
“Computations were performed using the Extreme Science and Engineering Discovery Environment (XSEDE) resources supported by the NSF (OCI-1053575) and the UCLA Institute for Digital Research and Education (IDRE)Hoffman2 cluster.” (pg. 12074)
Jackson, Thomas S., Gunnar Möller, and Rahul Roy. “Geometric stability of topological lattice phases.” Nature Communications 6, no. 1 (2015): 1-11. https://doi.org/10.1038/ncomms9629
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 11)
Kellerman, A. C., Y. Y. Shprits, R. A. Makarevich, E. Spanswick, E. Donovan, and G. Reeves. “Characterization of the energy‐dependent response of riometer absorption.” Journal of Geophysical Research: Space Physics 120, no. 1 (2015): 615-631. https://doi.org/10.1002/2014JA020027
Kwon, Joseph Sang-Il, Michael Nayhouse, and Panagiotis D. Christofides. “Detection and isolation of batch-to-batch parametric drift in crystallization using in-batch and post-batch measurements.” Industrial & Engineering Chemistry Research 54, no. 20 (2015): 5514-5526. https://doi.org/10.1021/acs.iecr.5b00422
“The simulations were carried out on the Hoffman2 cluster at UCLA and the optimization problems were solved using the open source interior point optimizer, IPOPT.” (pg. 5517)
Kwon, Joseph Sang-Il, Michael Nayhouse, and Panagiotis D. Christofides. “Multiscale, multidomain modeling and parallel computation: application to crystal shape evolution in crystallization.” Industrial & Engineering Chemistry Research 54, no. 47 (2015): 11903-11914. https://doi.org/10.1021/acs.iecr.5b02942
“In this work, the Hoffman2 cluster, which consists of 1200 nodes with a total of 13 340 cores and over 50 TB of memory, is used along with MPI settings for all of the simulations. The memory of each node varies from 8 to 128 GB, and there are many types of CPUs including Intel and AMD, with 8, 12, and 16 cores, respectively. Because of the variety of the CPU types, if a small number of cores (e.g., 1, 2, 4, and 8 cores) are requested to the Hoffman2 cluster for the simulation of the multiscale model of the batch crystallization process, then it is possible to get one bad CPU that consists of many bad cores, which will result in poor parallelization performance. To circumvent this issue, among the many CPU types in the Hoffman2 cluster, Intel-E5530 with 8 cores is specifically requested and used for the construction of the plots and tables presented in this section.” (pg. 11910)
Larsen, Bradley Robert. “Parallel Nonlinear Aeroelastic Computation for Fighter Wings in the Transonic Region.” (2015). https://escholarship.org/uc/item/47c3914t
“First, the amount of data we intend to collect requires the use of UCLA’s Hoffman2 computing cluster. However, the code requires linking to commercially licensed libraries that are not available on Hoffman2…It is a relatively simple change, but necessary to make it possible to execute the aeroelastic code of the Hoffman2 cluster, allowing dozens of programs to operate simultaneously and removing the need to skip data points in the test-matrix in the interest of time….The only substantive change necessary to make the source code compatible with the Hoffman2 cluster was to swap out the set of subroutines used for solving and manipulating linear systems of equations” (pg. 36, 37); “With that in mind, benchmarking was done in as close to a controlled environment as possible, and using the hardware on the Hoffman2 cluster, since that is where all production runs are executed. The Hoffman2 cluster allows users to request interactive control of a computational node for a limited period of time.” (pg. 47)
Lopez, Steven Alexander. “Computational investigations of new bioorthogonal cycloadditions and organic semiconducting materials.” (2015).
Mackey, Joel Loren. “Quantum Mechanics and Molecular Dynamic Investigations of Organic Reactions.” (2015). https://escholarship.org/uc/item/9356s7tq
“Funding for my graduate studies was provided by the National Science Foundation (CHE-0548209) and computational resources were provided by the UCLA Institute for Digital Research and Education (IDRE) and the Hoffman2 cluster along with the Extreme Science and Engineering Discovery Environment (XSEDE) (CHE040014).” (pg. xii)
Nedd, Sean, and Anastassia N. Alexandrova. “The mechanism of the Pd-catalyzed formation of coumarins: a theoretical study.” Physical Chemistry Chemical Physics 17, no. 2 (2015): 1347-1353. https://doi.org/10.1039/C4CP03418J
“The calculations were carried out on the computers of the Hoffman2 cluster at the Institute for Digital Research and Education (IDRE) located in the University of California, Los Angeles.” (pg. 1352)
Neufeldt, Sharon R., Gonzalo Jiménez-Osés, John R. Huckins, Oliver R. Thiel, and K. N. Houk. “Pyridine N-oxide vs pyridine substrates for Rh (III)-catalyzed oxidative C–H bond functionalization.” Journal of the American Chemical Society 137, no. 31 (2015): 9843-9854. https://doi.org/10.1021/jacs.5b03535
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 2853)
Pan, Andrew, and Chi On Chui. “Gate-induced source tunneling FET (GISTFET).” IEEE Transactions on Electron Devices 62, no. 8 (2015): 2390-2395. https://doi.org/10.1109/TED.2015.2445343
Pan, Andrew, Greg Leung, and Chi On Chui. “Junctionless silicon and In 0.53 Ga 0.47 As transistors—Part I: Nominal device evaluation with quantum simulations.” IEEE Transactions on Electron Devices 62, no. 10 (2015): 3199-3207. https://doi.org/10.1109/TED.2015.2464291
Pan, Andrew. “Physics and Modeling of Tunneling in Low Power Transistors.” (2015). https://escholarship.org/uc/item/28p6j4vf
“Many of the Green’s function calculations performed throughout this work were carried out using the Hoffman2 shared cluster provided by the UCLA Institute for Digital Research and Education (IDRE)’s Research Technology Group.” (pg. xx)
Pan, Qingjiang. “Charged Particle Energization and Transport in the Magnetotail during Substorms.” (2015). https://escholarship.org/uc/item/2056z0tq
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg xvi)
Park, Hyunwook. “A numerical study of the effects of superhydrophobic surfaces on skin-friction drag reduction in wall-bounded shear flows.” (2015). https://escholarship.org/uc/item/4vz7m8hb
“This research was supported by the ONR (Grant No. N000141110503 and N000141410291), NSF through XSEDE resources provided by SDSC and TACC, and Hoffman2 Cluster of the UCLA IDRE.” (pg. xvi)
Park, Juw Won, Julia Chariker, and Yi Xing. “Strand specific RNA-seq data for higher specificity.” In Proceedings of the 2015 Conference on research in adaptive and convergent systems, pp. 123-124. 2015. https://doi.org/10.1145/2811411.2814709
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 124)
Patel, Ashay, F. G. West, and K. N. Houk. “Reactivity and Stereoselectivity of 6π and Nazarov Electrocyclizations of Bridged Bicyclic Trienes and Divinyl Ketones.” The Journal of Organic Chemistry 80, no. 5 (2015): 2790-2795. https://doi.org/10.1021/acs.joc.5b00070
“Computations were performed using the Hoffman2 cluster at the University of California, Los Angeles, as well as the Extreme Science and Engineering Discovery Environment’s (TG CHE 040013N) Gordon and Trestles supercomputers at the San Diego Supercomputing Cluster.” (pg. 2794)
Patel, Ashay, Joseph R. Vella, Zhi-Xiong Ma, R. P. Hsung, and K. N. Houk. “Transition State Gauche Effects Control the Torquoselectivities of the Electrocyclizations of Chiral 1-Azatrienes.” The Journal of organic chemistry 80, no. 23 (2015): 11888-11894. https://doi.org/10.1021/acs.joc.5b02085
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group in addition to the NSF-supported Extreme Science and Engineering Discovery Environment (XSEDE)’s Trestles and Gordon supercomputers (OCI-1053575) at the San Diego Supercomputing Center.” (pg. 11893)
Pulugundla, Gautam, Sergey Smolentsev, Tyler Rhodes, Charlie Kawczynski, and Mohamed Abdou. “Transition to a quasi-fully developed mhd flow in an electrically conducting pipe under a transverse non-uniform magnetic field.” Fusion Science and Technology 68, no. 3 (2015): 684-689. https://doi.org/10.13182/FST14-983
“This work used computational and storage services associated with the Hoffman2 Shared Cluster provided by UCLA Institute for Digital Research and Education’s Research Technology Group.” (pg. 689)
Sato, Michio, Fumitoshi Yagishita, Takashi Mino, Nahoko Uchiyama, Ashay Patel, Yit-Heng Chooi, Yukihiro Goda et al. “Involvement of lipocalin-like CghA in decalin-forming stereoselective intramolecular [4+ 2] cycloaddition.” Chembiochem: a European journal of chemical biology 16, no. 16 (2015): 2294. https://dx.doi.org/10.1002%2Fcbic.201500386
“We thank UCLA’s Hoffman2 cluster and NSF’s Extreme Science and Engineering Discovery Environment (TG-CHE040013N) for computing time on the Gordon and Stampede cluster. Y.T. is supported by NIH (1DP1GM106413).” (pg. 5)
Schaal, Christoph, and Ajit Mal. “Dispersion of guided waves in composite laminates and sandwich panels.” Health Monitoring of Structural and Biological Systems 2015 9438 (2015): 94380L.
Shen, Lu, Jonny Dadras, and Anastassia N. Alexandrova. “Correction: Pure and Zn-doped Pt clusters go flat and upright on MgO (100).” Physical chemistry chemical physics: PCCP 17, no. 16 (2015): 11109. https://doi.org/10.1039/c5cp90048d
“Calculations were performed using the UCLA Hoffman2 shared cluster.” (pg. 26440)
Simpson, Larry, Stephen M. Douglass, James A. Lake, Matteo Pellegrini, and Feng Li. “Comparison of the mitochondrial genomes and steady state transcriptomes of two strains of the trypanosomatid parasite, Leishmania tarentolae.” PLoS Negl Trop Dis 9, no. 7 (2015): e0003841. https://doi.org/10.1371/journal.pntd.0003841
“Informatics analysis was mainly performed using the Broad Institute Galaxy system [51] installed on the Hoffman2 cluster at UCLA.” (pg. 6)
Sun, Argus, Samuel S. Murray, Elsa J. Brochmann, Louis S. Bouchard, and Luke P. Lee. “Quantum Simulation for a Cyclic Peptide 环肽量化模拟.” Convergence 1: x10-8. https://www.researchgate.net/profile/Argus-Sun/publication/284179639_QuantumSimulationCyclicPeptide2/links/564e59f308aeafc2aab1cb3c/QuantumSimulationCyclicPeptide2.pdf
Tang, Weixin, Gonzalo Jiménez-Osés, K. N. Houk, and Wilfred A. Van Der Donk. “Substrate control in stereoselective lanthionine biosynthesis.” Nature chemistry 7, no. 1 (2015): 57. https://doi.org/10.1038/nchem.2113
“Calculations were performed on the Hoffman2 Cluster at the University of California, Los Angeles, and the Extreme Science and Engineering Discovery Environment, which is supported by the National Science Foundation (OCI-1053575).” (pg 64)
Törk, Lisa, Gonzalo Jiménez-Osés, Charles Doubleday, Fang Liu, and K. N. Houk. “Molecular dynamics of the Diels–Alder reactions of tetrazines with alkenes and N2 extrusions from adducts.” Journal of the American Chemical Society 137, no. 14 (2015): 4749-4758. https://doi.org/10.1021/jacs.5b00014
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 4757)
Walton, Mary C., Yun-Fang Yang, Xin Hong, K. N. Houk, and Larry E. Overman. “Ligand-Controlled Diastereoselective 1, 3-Dipolar Cycloadditions of Azomethine Ylides with Methacrylonitrile.” Organic letters 17, no. 24 (2015): 6166-6169. https://doi.org/10.1021/acs.orglett.5b03171
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 6168)
Xie, Sheng, Steven A. Lopez, Olof Ramström, Mingdi Yan, and K. N. Houk. “1, 3-Dipolar cycloaddition reactivities of perfluorinated aryl azides with enamines and strained dipolarophiles.” Journal of the American Chemical Society 137, no. 8 (2015): 2958-2966. https://doi.org/10.1021/ja511457g
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation grant number OCI-10535. Figures 2, 5, 7, and 8 were generated using CYLview.28” (pg. 2965)
Yang, Zhongyue, Charles Doubleday, and K. N. Houk. “QM/MM protocol for direct molecular dynamics of chemical reactions in solution: The water-accelerated Diels–Alder reaction.” Journal of chemical theory and computation 11, no. 12 (2015): 5606-5612. https://doi.org/10.1021/acs.jctc.5b01029
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI1053575).” (pg. 5611)
Yavuz, Ilhan, Blanton N. Martin, Jiyong Park, and K. N. Houk. “Theoretical study of the molecular ordering, paracrystallinity, and charge mobilities of oligomers in different crystalline phases.” Journal of the American Chemical Society 137, no. 8 (2015): 2856-2866. https://doi.org/10.1021/ja5076376
“All calculations were performed on the Hoffman2 cluster at UCLA.” (pg. 2864)
Yavuz, Ilhan, Lei Zhang, Alejandro L. Briseno, and K. N. Houk. “Simulations of Molecular Ordering and Charge-Transport of Oligo-Didodecylquaterthiophenes (DDQT).” The Journal of Physical Chemistry C 119, no. 1 (2015): 158-165. https://doi.org/10.1021/jp510567d
“We thank Jiyong Park and Blanton N. Martin for helpful comments. All calculations were performed on the Hoffman2 cluster at UCLA.” (pg. 164)
Yu, Peiyuan, Ashay Patel, and K. N. Houk. “Transannular [6+ 4] and ambimodal cycloaddition in the biosynthesis of heronamide A.” Journal of the American Chemical Society 137, no. 42 (2015): 13518-13523. https://doi.org/10.1021/jacs.5b06656
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 13522)
Amiri, Behzad, Jorg Kliewer, and Lara Dolecek. “Analysis and enumeration of absorbing sets for non-binary graph-based codes.” IEEE transactions on communications 62, no. 2 (2014): 398-409. https://doi.org/10.1109/TCOMM.2013.122113.130465
“All the simulation results presented in this paper were performed over a six month period on the Hoffman2 Cluster which is a part of High Performance Computing Resources at UCLA. The Hoffman2 cluster has more than 800 machines and about 7000 cores. The CPUs have 8, 12 or 16 cores with speed of 2.2 − 3.0 GHz. Each core has 1GB, 4GB or 8GB of memory. The Hoffman2 cluster uses the CentOS Linux 6.2 Operating System.” (pg. 404)
Arlen, Timothy C., Vladimir V. Vassilev, Thomas Weisgarber, Scott P. Wakely, and S. Yusef Shafi. “Intergalactic magnetic fields and gamma-ray observations of extreme TeV blazars.” The Astrophysical Journal 796, no. 1 (2014): 18. http://dx.doi.org/10.1088/0004-637X/796/1/18
“The simulations were performed on the UCLA hoffman2 cluster as well as the Joint Fermilab-KICP Supercomputing Cluster.” (pg. 17)
Ascenzi, Maria-Grazia, Andre Lutz, Xia Du, Laureen Klimecky, Neal Kawas, Talia Hourany, Joelle Jahng et al. “Hyperlipidemia affects multiscale structure and strength of murine femur.” Journal of biomechanics 47, no. 10 (2014): 2436-2443. https://doi.org/10.1016/j.jbiomech.2014.04.006
“We analyzed the mFE models with Abaqus software (Dassault Systèmes) on UCLA’s Hoffman cluster and UCSD’s Trestles supercomputer.” (pg. 2437); “This research was supported by XSEDE (NSF Grant # OCI-1053575), UCLA’s Hoffman2 Cluster; and Orthopedic Hospital Research Center.” (pg. 2442)
Cannon, Jeffrey S., Lufeng Zou, Peng Liu, Yu Lan, Daniel J. O’Leary, Kendall N. Houk, and Robert H. Grubbs. “Carboxylate-Assisted C (sp3)–H Activation in Olefin Metathesis-Relevant Ruthenium Complexes.” Journal of the American Chemical Society 136, no. 18 (2014): 6733-6743. https://doi.org/10.1021/ja5021958
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF. K. M. Engle, J. Hartung, andZ. K. Wickens are gratefully acknowledged for helpful discussions.” (pg. 6741)
Cao, Yang, Yong Liang, Lei Zhang, Sílvia Osuna, Andra-Lisa M. Hoyt, Alejandro L. Briseno, and K. N. Houk. “Why bistetracenes are much less reactive than pentacenes in Diels–Alder reactions with fullerenes.” Journal of the American Chemical Society 136, no. 30 (2014): 10743-10751. https://doi.org/10.1021/ja505240e
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg 10750)
Castro, Jorge Arturo Flores. “Códigos de verificación de paridad de baja densidad: Construcción y Propiedades.” (2014). https://inaoe.repositorioinstitucional.mx/jspui/handle/1009/201
Dornan, Peter K., Kevin GM Kou, K. N. Houk, and Vy M. Dong. “Dynamic Kinetic Resolution of Allylic Sulfoxides by Rh-Catalyzed Hydrogenation: A Combined Theoretical and Experimental Mechanistic Study.” Journal of the American Chemical Society 136, no. 1 (2014): 291-298. https://doi.org/10.1021/ja409824b
“Computations were performed on the IDRE Hoffman2 cluster at UCLA and the HPCVL cluster at Queen’s University, Kingston.” (pg 297)
Frewen, Shane FN, and B. M. S. Hansen. “Eccentric planets and stellar evolution as a cause of polluted white dwarfs.” Monthly Notices of the Royal Astronomical Society 439, no. 3 (2014): 2442-2458. https://doi.org/10.1093/mnras/stu097
“We ran the simulation, as well as those in Sections 4 and 6, on the UCLA Institute for Digital Research and Education (IDRE) Hoffman2 cluster using the MERCURY integrator package (Chambers 1999)” (pg. 2445)
Girotto, Manuela. “A snow water equivalent reanalysis approach to explore spatial and temporal variability of the sierra nevada snowpack.” (2014). https://search.proquest.com/openview/e27f7c22a57fd51ac635578a23fc855f/1?pq-origsite=gscholar&cbl=18750&diss=y&casa_token=hR1TQfkmDV0AAAAA:c3kmO1LepDj5ui8R8n3Yg8vYjIvmmJXW6eFWgdA9AMO_WEgMxnv0uhL5WGjaB_gHnJqj_ef1hxc
Green, Aaron G., Peng Liu, Craig A. Merlic, and K. N. Houk. “Distortion/interaction analysis reveals the origins of selectivities in iridium-catalyzed C–H borylation of substituted arenes and 5-membered heterocycles.” Journal of the American Chemical Society 136, no. 12 (2014): 4575-4583. https://doi.org/10.1021/ja411699u
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg. 4582)
Hong, Xin, Dane Holte, Daniel CG Götz, Phil S. Baran, and K. N. Houk. “Mechanism, reactivity, and selectivity of nickel-catalyzed [4+ 4+ 2] cycloadditions of dienes and alkynes.” The Journal of organic chemistry 79, no. 24 (2014): 12177-12184. https://doi.org/10.1021/jo502219d
“Calculations were performed on the Hoffman2 Cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (Grant No. OCI-1053575).” (pg. 12183)
Hong, Xin, Hatice Başpınar Küçük, Modhu Sudan Maji, Yun-Fang Yang, Magnus Rueping, and K. N. Houk. “Mechanism and selectivity of N-triflylphosphoramide catalyzed (3++ 2) cycloaddition between hydrazones and alkenes.” Journal of the American Chemical Society 136, no. 39 (2014): 13769-13780. https://doi.org/10.1021/ja506660c
“Calculations were performed on the Hoffman2 Cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (Grant OCI-1053575).” (pg. 13778)
Hong, Xin, Matthew C. Stevens, Peng Liu, Paul A. Wender, and K. N. Houk. “Reactivity and chemoselectivity of allenes in Rh (I)-catalyzed intermolecular (5+ 2) cycloadditions with vinylcyclopropanes: allene-mediated rhodacycle formation can poison Rh (I)-catalyzed cycloadditions.” Journal of the American Chemical Society 136, no. 49 (2014): 17273-17283. https://doi.org/10.1021/ja5098308
“Calculations were performed on the Hoffman2 Cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 17281)
Hong, Xin, Yong Liang, Allison K. Griffith, Tristan H. Lambert, and K. N. Houk. “Distortion-accelerated cycloadditions and strain-release-promoted cycloreversions in the organocatalytic carbonyl-olefin metathesis.” Chemical Science 5, no. 2 (2014): 471-475. https://doi.org/10.1039/C3SC52882K
Hong, Xin, Yong Liang, and K. N. Houk. “Mechanisms and origins of switchable chemoselectivity of Ni-catalyzed C (aryl)–O and C (acyl)–O activation of aryl esters with phosphine ligands.” Journal of the American Chemical Society 136, no. 5 (2014): 2017-2025. https://doi.org/10.1021/ja4118413
“We are grateful to the National Science Foundation (CHE-1059084) for financial support of this research. Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI1053575).” (pg. 2024)
Hong, Xin, Yong Liang, Matthias Brewer, and K. N. Houk. “How Tethers Control the Chemo-and Regioselectivities of Intramolecular Cycloadditions between Aryl-1-aza-2-azoniaallenes and Alkenes.” Organic letters 16, no. 16 (2014): 4260-4263. https://doi.org/10.1021/ol501958s
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 4236)
Hong, Xin. “The Mechanism and Origins of Reactivities and Selectivities in Transition-metal-catalyzed and Organocatalyzed Cycloadditions.” (2014). https://escholarship.org/uc/item/9dh130b7
“Computer time was provided in part by the UCLA Institute for Digital Research and Education (IDRE) Hoffman2 cluster, and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. xx)
Kumar, Puneet, Ashish Thakur, Xin Hong, K. N. Houk, and Janis Louie. “Ni (NHC)]-Catalyzed Cycloaddition of Diynes and Tropone: Apparent Enone Cycloaddition Involving an 8π Insertion.” Journal of the American Chemical Society 136, no. 51 (2014): 17844-17851. https://doi.org/10.1021/ja5105206
“Calculations were performed on the Hoffman2 Cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg 17849)
Lemos, Nuno, Jessica Shaw, C. J. Zhang, K. A. Marsh, and Chan Joshi. “Manipulating ionization-injection trapping in laser wakefield accelerators.” APS 2014 (2014): CO7-004. https://ui.adsabs.harvard.edu/abs/2014APS..DPPCO7004L/abstract
Liang, Yong, Xin Hong, Peiyuan Yu, and K. N. Houk. “Why alkynyl substituents dramatically accelerate hexadehydro-Diels–Alder (HDDA) reactions: stepwise mechanisms of HDDA cycloadditions.” Organic letters 16, no. 21 (2014): 5702-5705. https://doi.org/10.1021/ol502780w
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 5704-5705)
Liu, Fang, Yong Liang, and K. N. Houk. “Theoretical elucidation of the origins of substituent and strain effects on the rates of Diels–Alder reactions of 1, 2, 4, 5-tetrazines.” Journal of the American Chemical Society 136, no. 32 (2014): 11483-11493. https://doi.org/10.1021/ja505569a
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 11492)
Liu, Fang. “Theory of gated hemicarcerands and Diels-Alder reactions of tetrazines.” (2014). https://escholarship.org/uc/item/6028d3n8
“Computations were performed on the Extreme Science and Engineering Discovery Environment (XSEDE) and the UCLA IDRE Hoffman2 cluster.” (pg. xvii)
Lopez, Steven A., and K. N. Houk. “Substituent effects on rates and torquoselectivities of electrocyclic ring-openings of N-substituted 2-azetines.” The Journal of organic chemistry 79, no. 13 (2014): 6189-6195. https://doi.org/10.1021/jo500919s
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by National Science Foundation Grant No. OCI10535.” (pg. 6195)
Mousavi, Hamid, Maurizio Atzori, Shi Gao, and Carlo Zaniolo. “Text-mining, structured queries, and knowledge management on web document corpora.” ACM SIGMOD Record 43, no. 3 (2014): 48-54. https://doi.org/10.1145/2694428.2694437
“The experiments took several weeks on the Hoffman2 cluster at UCLA [3] using up to 256 cores each with 8GB of main memory” (pg. 52)
Mousavi, Hamid. “Summarizing massive information for querying web sources and data streams.” (2014). https://escholarship.org/uc/item/69g177g7
“This experiment is distributed over the Hoffman2 cluster at UCLA [Hof], on which we have access up to 400 cores each with 8 GB of main memory.” (pg. 66-67)
“The experiments were run using the Hoffman2 cluster at UCLA [Hof] with up to 256 cores each with 8GB of main memory and a machine with 64 cores of 2.3GHz and 256GB of main memory.” (pg. 97)
“To generate the TextGraphs and semantic links (Phase I), we distributed the task over up to 256 cores in Hoffman2 cluster [Hof].” (pg. 100)
Pan, Andrew, and Chi On Chui. “Modeling direct interband tunneling. I. Bulk semiconductors.” Journal of Applied Physics 116, no. 5 (2014): 054508. https://doi.org/10.1063/1.4891527
Pan, Andrew, and Chi On Chui. “Modeling direct interband tunneling. II. Lower-dimensional structures.” Journal of Applied Physics 116, no. 5 (2014): 054509. https://doi.org/10.1063/1.4891528
Pan, Qingjiang, Maha Ashour‐Abdalla, Raymond J. Walker, and Mostafa El‐Alaoui. “Electron energization and transport in the magnetotail during substorms.” Journal of Geophysical Research: Space Physics 119, no. 2 (2014): 1060-1079. https://doi.org/10.1002/2013JA019508
Patel, Ashay, and K. N. Houk. “Terminal Substituent Effects on the Reactivity, Thermodynamics, and Stereoselectivity of the 8π–6π Electrocyclization Cascades of 1, 3, 5, 7-Tetraenes.” The Journal of organic chemistry 79, no. 23 (2014): 11370-11377. https://doi.org/10.1021/jo5015728
“Computations were performed using UCLA’s Hoffman2 cluster as well as the Extreme Science and Engineering Design Environment’s (Grant TG CHE 040013N) Gordon and Trestles supercomputers at the San Diego Supercomputing Center.” (pg. 11376)
Pham, Hung V., and K. N. Houk. “Diels–Alder Reactions of Allene with Benzene and Butadiene: Concerted, Stepwise, and Ambimodal Transition States.” The Journal of organic chemistry 79, no. 19 (2014): 8968-8976. https://doi.org/10.1021/jo502041f
“Computer time was provided by the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE) (Grant No. OCI-1053575), which is supported by the National Science Foundation.” (pg. 8975)
Shaw, J. L., F. S. Tsung, N. Lemos, K. A. Marsh, N. Vafaei-Najafabadi, W. B. Mori, and C. Joshi. “Direct Laser Acceleration of Electrons in a Plasma Wakefield with Ionization Injection.” APS 2014 (2014): CO7-001. https://ui.adsabs.harvard.edu/abs/2014APS..DPPCO7001S/abstract
Shaw, J. L., F. S. Tsung, N. Vafaei-Najafabadi, K. A. Marsh, N. Lemos, W. B. Mori, and C. Joshi. “Role of direct laser acceleration in energy gained by electrons in a laser wakefield accelerator with ionization injection.” Plasma physics and controlled fusion 56, no. 8 (2014): 084006. http://dx.doi.org/10.1088/0741-3335/56/8/084006
“Simulation work done on the Hoffman2 Cluster at UCLA and on NERSC.” (pg. 7)
Shen, Lu, Jonny Dadras, and Anastassia N. Alexandrova. “Pure and Zn-doped Pt clusters go flat and upright on MgO (100).” Physical Chemistry Chemical Physics 16, no. 48 (2014): 26436-26442. https://doi.org/10.1039/C4CP01877J
Simkin, M. V., and V. P. Roychowdhury. “Stochastic modeling of a serial killer.” Journal of theoretical biology 355 (2014): 111-116. https://doi.org/10.1016/j.jtbi.2014.03.039
“Computations were performed at the UCLA IDRE Hoffman2 cluster.” (pg. 116)
Tran, Anh T., Peng Liu, K. N. Houk, and Kenneth M. Nicholas. “Regioselectivity in the Cu (I)-Catalyzed [4+ 2]-Cycloaddition of 2-Nitrosopyridine with Unsymmetrical Dienes.” The Journal of organic chemistry 79, no. 12 (2014): 5617-5626. https://doi.org/10.1021/jo5005907
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg. 5625)
Van Lew, Jon T., Alice Ying, and Mohamed Abdou. “A discrete element method study on the evolution of thermomechanics of a pebble bed experiencing pebble failure.” Fusion Engineering and Design 89, no. 7-8 (2014): 1151-1157. https://doi.org/10.1016/j.fusengdes.2014.04.066
“Parallelization of the code is straightforward with LAMMPS and we run the code on 128 nodes of UCLA’s Hoffman2 cluster for typical run times of 18–24 h per routine (e.g. filling, packing, heating, etc.).” (pg. 1153)
Vogt, Marissa F., Margaret G. Kivelson, Krishan K. Khurana, Raymond J. Walker, Maha Ashour‐Abdalla, and Emma J. Bunce. “Simulating the effect of centrifugal forces in Jupiter’s magnetosphere.” Journal of Geophysical Research: Space Physics 119, no. 3 (2014): 1925-1950. https://doi.org/10.1002/2013JA019381
Yang, Jun, Yong Liang, Jolita Šečkutė, K. N. Houk, and Neal K. Devaraj. “Synthesis and Reactivity Comparisons of 1‐Methyl‐3‐Substituted Cyclopropene Mini‐tags for Tetrazine Bioorthogonal Reactions.” Chemistry–A European Journal 20, no. 12 (2014): 3365-3375. https://doi.org/10.1002/chem.201304225
Yang, Yun-Fang, Gui-Juan Cheng, Peng Liu, Dasheng Leow, Tian-Yu Sun, Ping Chen, Xinhao Zhang, Jin-Quan Yu, Yun-Dong Wu, and K. N. Houk. “Palladium-catalyzed meta-selective C–H bond activation with a nitrile-containing template: computational study on mechanism and origins of selectivity.” Journal of the American Chemical Society 136, no. 1 (2014): 344-355. https://doi.org/10.1021/ja410485g
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg. 353)
Yang, Zhongyu, Gonzalo Jiménez-Osés, Carlos J. López, Michael D. Bridges, K. N. Houk, and Wayne L. Hubbell. “Long-range distance measurements in proteins at physiological temperatures using saturation recovery EPR spectroscopy.” Journal of the American Chemical Society 136, no. 43 (2014): 15356-15365. https://doi.org/10.1021/ja5083206
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 15364)
Adli, E., J. P. Delahaye, S. J. Gessner, M. J. Hogan, T. Raubenheimer, W. An, W. Mori, and C. Joshi. “Design of a TeV beam driven plasma wakefield linear collider.” Proc. IPAC13 (2013). https://accelconf.web.cern.ch/IPAC2013/papers/tupme020.pdf
“We acknowledge Marc Ross for stimulating discussions.QuickPIC simulations are performed on the Hoffman2 Cluster at UCLA.” (pg 1615)
Adli, E., S. Corde, R. J. England, J. Frederico, S. J. Gessner, S. Li, Z. Wu et al. “First results from the electron hose instability studies in FACET.” In Conf. Proc. C1205201: 43-45, 2012, no. SLAC-PUB-15802. SLAC National Accelerator Lab., Menlo Park, CA (United States), 2013. https://www.slac.stanford.edu/cgi-bin/getdoc/slac-pub-15802.pdf
“QuickPIC simulations are performed on the Hoffman2 Cluster at UCLA.” (pg. 15804)
Adli, E., S. Corde, R. J. England, J. T. Frederico, S. J. Gessner, M. J. Hogan, S. Z. Li et al. “Positron PWFA Simulations for FACET.” In Conf. Proc. C1205201: 2834-2836, 2012, no. SLAC-PUB-15368. SLAC National Accelerator Lab., Menlo Park, CA (United States), 2013. https://www.slac.stanford.edu/cgi-bin/getdoc/slac-pub-15368.pdf
“Simulations are performed on the Hoffman2 Cluster at UCLA.” (pg. 2836)
Arlen, Timothy C., and Vladimir V. Vassiliev. “Extreme TeV Blazars and Lower Limits on Intergalactic Magnetic Fields.” arXiv preprint arXiv:1303.2121 (2013). https://arxiv.org/abs/1303.2121
“All simulations were performed on the UCLA hoffman2 cluster.” (pg.3)
Arlen, Timothy. “Constraining the Intergalactic Magnetic Field Through its Imprint on Gamma Ray Data from Distant Sources.” (2013). https://escholarship.org/uc/item/0gv406rt
Ascenzi, Maria-Grazia, Neal P. Kawas, Andre Lutz, Dieter Kardas, Udo Nackenhorst, and Joyce H. Keyak. “Individual-specific multi-scale finite element simulation of cortical bone of human proximal femur.” Journal of Computational Physics 244 (2013): 298-311. https://doi.org/10.1016/j.jcp.2012.05.027
“We specifically acknowledge the assistance of Mahidas Tatenani (Trestles, SDSC), Seid Koric (Ember, NCSA) and Tajendra Singh (Hoffman2 cluster, Academic Technology Services, UCLA) with supercomputing; and of Allison K. Roe with manuscript preparation.” (pg. 309)
Athakitkarnka, Pavitra. “Gene Annotation in Rice Genome Using Homology.” (2013). https://escholarship.org/uc/item/9n35c8hj
“In this project, I was able to search 67,393 rice amino acid query sequences against the protein sequence database of 49,966 rice-specific protein sequences using the computing power of the Hoffman2 cluster. The Hoffman2 cluster is a grid resource in the UCLA grid and is accessed via the UCLA grid portal, which is operated by the Institute of Digital Research and Education (IDRE) research technology group. The grid infrastructure focuses on resource sharing across institutional borders and among dynamic collections of institutions to enable the collaboration of distributed computing. In the case of the UCLA grid, the Hoffman2 cluster works with 84 UCLA departments, centers and institutes. To meet the high need for computing power and storage capacity, the Hoffman2 cluster provides more than 9,000 processors in three data centers. The grid technologies provide direct access to computers, software, and data. Data center centers, computer nodes and data storage are connected by Ethernet and InfiniBand networks. Globus online (https://www.globusonline.org/), which is a grid middle-ware, enables secure data transfer between my personal computer and the Hoffman2 cluster.” (pg. 19-20)
Balu, Radhakrishnan, Prakashan Korambath, Ravindra Pandey, and Shashi P. Karna. “Ab initio study of nonlinear optical properties of aromatic fused rings.” Chemical Physics Letters 590 (2013): 58-62. https://doi.org/10.1016/j.cplett.2013.10.078
“Calculations were performed on the Hoffman2 cluster at University of California, Los Angeles and DOD Supercomputing Resource Centers (DSRCs) located at the U.S. Army Research Laboratory.” (pg. 62)
Bian, Shudan, Amy M. Scott, Yang Cao, Yong Liang, Sílvia Osuna, K. N. Houk, and Adam B. Braunschweig. “Covalently patterned graphene surfaces by a force-accelerated diels–alder reaction.” Journal of the American Chemical Society 135, no. 25 (2013): 9240-9243. https://doi.org/10.1021/ja4042077
“Calculations were performed on the Hoffman2 Cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 9243)
Cao, Yang, Sílvia Osuna, Yong Liang, Robert C. Haddon, and K. N. Houk. “Diels–Alder reactions of graphene: computational predictions of products and sites of reaction.” Journal of the American Chemical Society 135, no. 46 (2013): 17643-17649. https://doi.org/10.1021/ja410225u
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 17648)
Cousins, Robert D. “Experimental And Theoretical High Energy Physics Research At UCLA.” (2013).
de Loera, Denisse, Fang Liu, K. N. Houk, and Miguel A. Garcia-Garibay. “Aziridine Nitrogen Inversion by Dynamic NMR: Activation Parameters in a Fused Bicyclic Structure.” The Journal of Organic Chemistry 78, no. 22 (2013): 11623-11626. https://doi.org/10.1021/jo4022315
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 11625)
de Vera, Ryan, Qui Pham, and Juhyun Kim STINKERTON. “Community Detection Using Geosocial Data and Geographical Point-Set Distances.” (2013). https://www.semanticscholar.org/paper/Community-Detection-Using-Geosocial-Data-and-Vera-Pham/2bf85caa3547ff1a259ca602b2c2737333276dc0?p2df
Holder, Jeffrey C., Lufeng Zou, Alexander N. Marziale, Peng Liu, Yu Lan, Michele Gatti, Kotaro Kikushima, K. N. Houk, and Brian M. Stoltz. “Mechanism and enantioselectivity in palladium-catalyzed conjugate addition of arylboronic acids to β-substituted cyclic enones: insights from computation and experiment.” Journal of the American Chemical Society 135, no. 40 (2013): 14996-15007. https://doi.org/10.1021/ja401713g
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg. 15005)
Hong, Xin, Barry M. Trost, and K. N. Houk. “Mechanism and origins of selectivity in Ru (II)-catalyzed intramolecular (5+ 2) cycloadditions and ene reactions of vinylcyclopropanes and alkynes from density functional theory.” Journal of the American Chemical Society 135, no. 17 (2013): 6588-6600. https://doi.org/10.1021/ja4012657
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg. 6599)
Hong, Xin, Peng Liu, and K. N. Houk. “Mechanism and origins of ligand-controlled selectivities in [Ni (NHC)]-catalyzed intramolecular (5+ 2) cycloadditions and homo-ene reactions: a theoretical study.” Journal of the American Chemical Society 135, no. 4 (2013): 1456-1462. https://doi.org/10.1021/ja309873z
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 1461)
Huo, Yili, and Jian Zhang. “Effects of pounding and skewness on seismic responses of typical multispan highway bridges using the fragility function method.” Journal of Bridge Engineering 18, no. 6 (2013): 499-515. https://doi.org/10.1061/(ASCE)BE.1943-5592.0000414
“The research used the ATS Hoffman2 cluster at University of California, Los Angeles, to conduct most of the numerical simulations presented in this paper.” (pg. 515)
James, Natalie C., Joann M. Um, Anne B. Padias, H. K. Hall Jr, and K. N. Houk. “Computational Investigation of the Competition between the Concerted Diels–Alder Reaction and Formation of Diradicals in Reactions of Acrylonitrile with Nonpolar Dienes.” The Journal of organic chemistry 78, no. 13 (2013): 6582-6592. https://doi.org/10.1021/jo400900x
“Environment (XSEDE) resources supported by NSF (OCI-1053575) and the UCLA Institute for Digital Research and Education (IDRE) Hoffman2 cluster.” (pg. 6591)
Jimenez-Oses, Gonzalo, Anthony J. Brockway, Jared T. Shaw, and K. N. Houk. “Mechanism of alkoxy groups substitution by Grignard reagents on aromatic rings and experimental verification of theoretical predictions of anomalous reactions.” Journal of the American Chemical Society 135, no. 17 (2013): 6633-6642. https://doi.org/10.1021/ja4015937
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 6641)
Kamber, David N., Lidia A. Nazarova, Yong Liang, Steven A. Lopez, David M. Patterson, Hui-Wen Shih, K. N. Houk, and Jennifer A. Prescher. “Isomeric cyclopropenes exhibit unique bioorthogonal reactivities.” Journal of the American Chemical Society 135, no. 37 (2013): 13680-13683. https://doi.org/10.1021/ja407737d
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 13683)
Kosuri, Sriram. “Biology; Secondary, 9: Quantitative and Computational Biology. This proposal describes existing collaborations for obtaining synthetic oligo and gene libraries. These collaborations include Agilent Technologies (Contact: Steve Laderman, Director, Molecular Tools Laboratory, Agilent Technologies), CustomArray (Contact: Marcelo Caraballo, Senior Scientist, CustomArray, Inc.), Gen9 (Contact: Kevin Munnelly, President and CEO, Gen9), and the Wyss.” cell 617 (2013): 852-4806. http://www.kosurilab.org/uploads/2/1/5/2/21523660/kosuridp2fullgrantapplication2014.pdf
Krenske, Elizabeth H., Ashay Patel, and K. N. Houk. “Does nature click? Theoretical prediction of an enzyme-catalyzed transannular 1, 3-dipolar cycloaddition in the biosynthesis of lycojaponicumins A and B.” Journal of the American Chemical Society 135, no. 46 (2013): 17638-17642. https://doi.org/10.1021/ja409928z
“High-performance computing resources were provided by the Australian National Computational Infrastructure National Facility, the University of Queensland Research Computing Centre, the UCLA Hoffman2 cluster, and the NSF Extreme Science and Engineering Discovery Environment (TGCHE040013N).” (pg. 17642)
Kwon, Joseph Sang-Il, Michael Nayhouse, Panagiotis D. Christofides, and Gerassimos Orkoulas. “Modeling and control of shape distribution of protein crystal aggregates.” Chemical Engineering Science 104 (2013): 484-497. https://doi.org/10.1016/j.ces.2013.09.026
“On a final note, all the batch crystallization simulations executed in this work were done in parallel using Message Passing Interface (MPI) on the Hoffman2 cluster at UCLA. The Hoffman2 cluster is a shared resource which composed of 1032 nodes with a total of 9772 cores.[…] Through extensive testing we found that using 20 cores was an appropriate tradeoff between time spent sending and receiving messages between cores while still reducing the time spent in the crystal growth process, as well as making sure the scheduler on the Hoffman2 cluster would accept our jobs in a reasonable amount of time.” (pg. 495)
Lee, Euntaek, Ri-Liang Heng, and Laurent Pilon. “Spectral optical properties of selected photosynthetic microalgae producing biofuels.” Journal of Quantitative Spectroscopy and Radiative Transfer 114 (2013): 122-135. https://doi.org/10.1016/j.jqsrt.2012.08.012
“The computation for this study was performed on the Hoffman2 cluster hosted by the Academic Technology Services (ATS) at the University of California, Los Angeles.” (pg. 133)
Liu, Fang, Robert S. Paton, Seonah Kim, Yong Liang, and K. N. Houk. “Diels–Alder reactivities of strained and unstrained cycloalkenes with normal and inverse-electron-demand dienes: Activation barriers and distortion/interaction analysis.” Journal of the American Chemical Society 135, no. 41 (2013): 15642-15649. https://doi.org/10.1021/ja408437u
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 15649)
Lloyd-Smith, James O., Christopher C. Strelioff, Dhanasekaran Vijaykrishna, Steven Riley, Yi Guan, and JS Malik Peiris. “Inferring patterns of influenza transmission in swine from multiple streams of surveillance data.” (2013). http://dx.doi.org/10.1098/rspb.2013.0872
“We thank the Institute for Digital Research and Education at UCLA for use of the hoffman2 cluster.” (pg. 7)
Lopez, Steven A., and K. N. Houk. “Alkene distortion energies and torsional effects control reactivities, and stereoselectivities of azide cycloadditions to norbornene and substituted norbornenes.” The Journal of organic chemistry 78, no. 5 (2013): 1778-1783. https://doi.org/10.1021/jo301267b
“The computations were performed on the UCLA IDRE Hoffman2 cluster.” (pg. 1782)
Marocchino, A., M. Tzoufras, S. Atzeni, A. Schiavi, Ph D. Nicolaï, J. Mallet, V. Tikhonchuk, and J-L. Feugeas. “Comparison for non-local hydrodynamic thermal conduction models.” Physics of Plasmas 20, no. 2 (2013): 022702. https://doi.org/10.1063/1.4789878
Miyazaki, Hiroshi, Myles B. Herbert, Peng Liu, Xiaofei Dong, Xiufang Xu, Benjamin K. Keitz, Thay Ung, Garik Mkrtumyan, K. N. Houk, and Robert H. Grubbs. “Z-selective ethenolysis with a ruthenium metathesis catalyst: experiment and theory.” Journal of the American Chemical Society 135, no. 15 (2013): 5848-5858. https://doi.org/10.1021/ja4010267
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI1053575).” (pg. 5857)
Patel, Ashay, Gregg A. Barcan, Ohyun Kwon, and K. N. Houk. “Origins of 1, 6-Stereoinduction in Torquoselective 6π Electrocyclizations.” Journal of the American Chemical Society 135, no. 12 (2013): 4878-4883. https://doi.org/10.1021/ja400882y
“The following computational resources were used in this study: the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE) supported by the NSF (OCI-1053575). O.K. and G.A.B. acknowledge funding from the NIH (R01GM071779) and the NSF (equipment grant CHE-1048804).” (pg. 4882)
Shaw, Jessica Leigh. “Characterization of Sub-millimeter-scale Gas Cells as Possible Injectors for Staged Laser Wakefield Acceleration.” (2013). https://search.proquest.com/openview/2852cb4b20d80f57c7913e757a60ac1c/1?pq-origsite=gscholar&cbl=18750&diss=y&casa_token=RLWYLwlsmSMAAAAA:3XDwSlInGQwjNz_3LUnT3WrRuAx6ewydFnFHI9yTg-2iYDrcC7qII0T6n9azRNyIRDfiWstH2GU
“I would also like to thank Weiming An, Asher Davidson, Adam Tableman, and Nuno Lemos for assistance in running simulations and Warren Mori for the use of the Hoffman2 Cluster at UCLA.” (pg. x)
Souris, Caroline, Frédéric Frébault, Ashay Patel, Davide Audisio, K. N. Houk, and Nuno Maulide. “Stereoselective synthesis of dienyl-carboxylate building blocks: Formal synthesis of inthomycin C.” Organic letters 15, no. 13 (2013): 3242-3245. https://doi.org/10.1021/ol401226y
“Computational studies were performed using the Hoffman2 cluster at UCLA as well as resources provided by Extreme Science and Engineering Discovery Environment (XSEDE) program supported by the NSF (OCI-1053575).” (pg. 3245)
Strelioff, Christopher C., Dhanasekaran Vijaykrishna, Steven Riley, Yi Guan, JS Malik Peiris, and James O. Lloyd-Smith. “Inferring patterns of influenza transmission in swine from multiple streams of surveillance data.” Proceedings of the Royal Society B: Biological Sciences 280, no. 1762 (2013): 20130872. https://doi.org/10.1098/rspb.2013.0872
“We thank the Institute for Digital Research and Education at UCLA for use of the hoffman2 cluster.” (pg. 7)
Tzoufras, M., A. Tableman, F. S. Tsung, W. B. Mori, and A. R. Bell. “A multi-dimensional Vlasov-Fokker-Planck code for arbitrarily anisotropic high-energy-density plasmas.” Physics of Plasmas 20, no. 5 (2013): 056303. https://doi.org/10.1063/1.4801750
Wang, Hao, Fang Liu, Roger C. Helgeson, and Kendall N. Houk. “Reversible photochemically gated transformation of a hemicarcerand to a carcerand.” Angewandte Chemie International Edition 52, no. 2 (2013): 655-659. https://doi.org/10.1002/anie.201205376 ” (pg. 19-20)
Wang, Hao. “Design and Synthesis of a Photoswitchable Gated Hemicarcerand and Computational Investigations of Stereoselective Organic Reactions.” (2013). https://escholarship.org/uc/item/9wc0479n
“Computations were performed on the Extreme Science and Engineering Discovery Environment (XSEDE), and on the UCLA IDRE Hoffman2 cluster.” (pg. xiv)
Winjum, B. J., J. E. Fahlen, F. S. Tsung, and W. B. Mori. “Anomalously hot electrons due to rescatter of stimulated Raman scattering in the kinetic regime.” Physical Review Letters 110, no. 16 (2013): 165001. https://doi.org/10.1103/PhysRevLett.110.165001
“This work was supported by DOE under Grant No. DE-FG52-09NA29552 and by NSF under Grant No. NSF-Phy-0904039. Simulations were carried out on the UCLA Hoffman2 cluster and NERSC’s Franklin and Hopper systems.” (pg. 5)
Xi, Y., B. Hidding, D. Bruhwiler, G. Pretzler, and J. B. Rosenzweig. “Hybrid modeling of relativistic underdense plasma photocathode injectors.” Physical Review Special Topics-Accelerators and Beams 16, no. 3 (2013): 031303. https://doi.org/10.1103/PhysRevSTAB.16.031303
“We have benefited from valuable discussions with P. H. Bucksbaum and acknowledge simulation resources at the UCLA Hoffman2 cluster, NERSC and JUROPA.” (pg. 8)
Xu, Xiufang, Peng Liu, Xing-zhong Shu, Weiping Tang, and K. N. Houk. “Rh-catalyzed (5+ 2) cycloadditions of 3-acyloxy-1, 4-enynes and alkynes: Computational study of mechanism, reactivity, and regioselectivity.” Journal of the American Chemical Society 135, no. 25 (2013): 9271-9274. https://doi.org/10.1021/ja4036785
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg. 9274)
Zhang, Jin, and Anastassia N. Alexandrova. “The golden crown: a single Au atom that boosts the CO oxidation catalyzed by a palladium cluster on titania surfaces.” The Journal of Physical Chemistry Letters 4, no. 14 (2013): 2250-2255. https://doi.org/10.1021/jz400981a
“Calculations were performed on the UCLA Hoffman2 shared cluster and the Chinook supercomputer from the EMSL, a national scientific user facility sponsored by the Department of Energy’s Office of Biological and Environmental Research, located at Pacific Northwest National Laboratory.” (pg. 2254)
Zou, Lufeng. “Quantum Chemistry in Organic Reactions: Investigations of Mechanism and Stereoselectivity in CH Bond Functionalizations and Cycloaddition Reactions.” (2013). https://escholarship.org/uc/item/3pj1n318
“Computer time was provided in part by the UCLA Institute for Digital Research and Education (IDRE) Hoffman2 cluster, and the Extreme Science and Engineering Discovery Environment (XSEDE).” (pg. xiv)
Adli, E., M. Hogan, J. Frederico, M. D. Litos, W. An, and W. Mori. “Transverse effects in plasma wakefield acceleration at FACET-Simulation studies.” In AIP Conference Proceedings, vol. 1507, no. 1, pp. 541-546. American Institute of Physics, 2012. https://doi.org/10.1063/1.4773755
“QuickPIC simulations are performed on the Hoffman2 Cluster at UCLA.” (pg 545)
Adli, Erik, M. J. Hogan, S. Corde, R. J. England, J. Frederico, S. J. Gessner, S. Li et al. “First results from the plasma wakefield acceleration transverse studies at FACET.” https://accelconf.web.cern.ch/IPAC2012/talks/mooab02_talk.pdf
Amiri, Behzad, Shayan Garani Srinivasa, and Lara Dolecek. “Quantization, absorbing regions and practical message passing decoders.” In 2012 Conference Record of the Forty Sixth Asilomar Conference on Signals, Systems and Computers (ASILOMAR), pp. 1255-1259. IEEE, 2012. https://doi.org/10.1109/ACSSC.2012.6489224
“We used the soft-x or LDPC decoder [8] in our simulations. An extensive amount of simulations was performed on Hoffman2 Cluster which is a part of High Performance Computing Resources at UCLA. The Hoffman2 cluster has more than 800 machines and about 7000 cores. The CPUs have 8, 12 or 16 cores with speed of 2.2 - 3.0 GHz. Each core has 1GB, 4GB or 8GB of memory. Hoffman2 cluster uses CentOS Linux 6.2 Operating System. Each curve in the FER vs SNR figures (many of which are omitted due to space limitations, please see [1] for the complete report on collected simulations) took an average of one day of simulations to be generated using multiple accounts on the Hoffman2 cluster. ” (pg. 1256)
Arlen, Timothy C., and Vladimir V. Vassiliev. “Hard spectrum TeV blazars and intergalactic magnetic fields.” In AIP Conference Proceedings, vol. 1505, no. 1, pp. 606-609. American Institute of Physics, 2012. https://doi.org/10.1063/1.4772333
Bogdan, Andrew R., Steven V. Jerome, K. N. Houk, and Keith James. “Strained cyclophane macrocycles: Impact of progressive ring size reduction on synthesis and structure.” Journal of the American Chemical Society 134, no. 4 (2012): 2127-2138. https://doi.org/10.1021/ja208503y
“We are grateful to the National Institutes of General Medical Sciences, the National Institutes of Health and Pfizer Worldwide R&D for their support and Academic Technology Services (ATS) at UCLA for access to the Hoffman2 cluster.” (pg. 2138)
Cacho, Ralph A., Wei Jiang, Yit-Heng Chooi, Christopher T. Walsh, and Yi Tang. “Identification and characterization of the echinocandin B biosynthetic gene cluster from Emericella rugulosa NRRL 11440.” Journal of the American Chemical Society 134, no. 40 (2012): 16781-16790. https://doi.org/10.1021/ja307220z
“Genome assembly of E. rugulosa NRRL 11440 was performed on the UCLA Academic Technological Services (ATS) Hoffman2 cluster. We would like to thank Qiyang Hu for his assistance in the use of the UCLA Hoffman cluster, Dr. Jaclyn M. Winter for assistance in RNA extraction, and Prof. Scott G. Filler from the UCLA Harbor Medical Center for providing the C. albicans strain.” (pg. 16789)
Eun, Jonghyoun. “Theory of quantum oscillations in cuprate superconductors.” (2012). https://escholarship.org/uc/item/2ff610vz
“This work is supported by NSF under the Grant No. DMR-0705092. All calculations were performed at Hoffman 2 Cluster at UCLA.” (pg. 27)
Fang, Jin, and Laurent Pilon. “Effect of Hydrogen Passivation on the Thermal Conductivity of Nanoporous Crystalline Silicon: A Molecular Dynamics Study.” In International Conference on Micro/Nanoscale Heat Transfer, vol. 54778, pp. 291-296. American Society of Mechanical Engineers, 2012. https://doi.org/10.1115/MNHMT2012-75153
“The simulations were implemented using the Large-scale Atomic/Molecular Massively Parallel Simulator (LAMMPS) on Hoffman2 cluster hosted by the Academic Technology Services at the University of California, Los Angeles.” (pg. 5)
Fang, Jin, and Laurent Pilon. “Tuning thermal conductivity of nanoporous crystalline silicon by surface passivation: A molecular dynamics study.” Applied Physics Letters 101, no. 1 (2012): 011909. https://doi.org/10.1063/1.4733352
Gessner, S. J., E. Adli, S. Corde, J. England, J. Frederico, M. J. Hogan, S. Li et al. “Positron pwfa simulations for facet.” SLAC publication (SLAC-PUB-15368) (2012). https://s3.cern.ch/inspire-prod-files-b/bf9ffcdf2324e9cac1918349787e09e6
Giri, Ramesh, Yu Lan, Peng Liu, K. N. Houk, and Jin-Quan Yu. “Understanding reactivity and stereoselectivity in palladium-catalyzed diastereoselective sp3 C–H bond activation: intermediate characterization and computational studies.” Journal of the American Chemical Society 134, no. 34 (2012): 14118-14126. https://doi.org/10.1021/ja304643e
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg. 14125)
Herbert, Myles B., Yu Lan, Benjamin K. Keitz, Peng Liu, Koji Endo, Michael W. Day, K. N. Houk, and Robert H. Grubbs. “Decomposition pathways of Z-selective ruthenium metathesis catalysts.” Journal of the American Chemical Society 134, no. 18 (2012): 7861-7866. https://doi.org/10.1021/ja301108m
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI1053575).” (pg. 7865)
Hidding, B., J. B. Rosenzweig, Y. Xi, B. O’Shea, G. Andonian, D. Schiller, S. Barber et al. “Beyond injection: Trojan horse underdense photocathode plasma wakefield acceleration.” In AIP Conference Proceedings, vol. 1507, no. 1, pp. 570-575. American Institute of Physics, 2012. https://doi.org/10.1063/1.4773760
“We gratefully used computational resources at UCLA’s Hoffman2 cluster, on JUROPA at Research Centre Jülich, and at the National Energy Research Scientific Computing Center, which is supported by DOE Grant No. DE-AC02-05CH11231.” (pg. 575)
Hillesheim, J. C., C. Holland, L. Schmitz, S. Kubota, T. L. Rhodes, and T. A. Carter. “2D full wave modeling for a synthetic Doppler backscattering diagnostic.” Review of Scientific Instruments 83, no. 10 (2012): 10E331. https://doi.org/10.1063/1.4733549
Korambath, Prakashan. “Concurrent write MPI/IO benchmarks on File Systems.” (2012). http://www.ucgrid.org/technical_reports/Parallelio.pdf
“Contributions from Justin Tea, John Pedersen, and Brian Pape of IDRE in the description of network topology of Hoffman2 cluster is also acknowledged. Shao-Ching Huang of IDRE shared his expertise in plotting graphs and preparing the manuscripts with various latex packages.” (pg. 8)
Lan, Yu, Peng Liu, Stephen G. Newman, Mark Lautens, and K. N. Houk. “Theoretical study of Pd (0)-catalyzed carbohalogenation of alkenes: mechanism and origins of reactivities and selectivities in alkyl halide reductive elimination from Pd (II) species.” Chemical Science 3, no. 6 (2012): 1987-1995. https://doi.org/10.1039/C2SC20103H
Liang, Yong, Joel L. Mackey, Steven A. Lopez, Fang Liu, and K. N. Houk. “Control and design of mutual orthogonality in bioorthogonal cycloadditions.” Journal of the American Chemical Society 134, no. 43 (2012): 17904-17907. https://doi.org/10.1021/ja309241e
“Calculations were performed on the Hoffman2 Cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF (OCI-1053575).” (pg. 17907)
Liu, Peng, Xing Yang, Vladimir B. Birman, and K. N. Houk. “Origin of enantioselectivity in benzotetramisole-catalyzed dynamic kinetic resolution of azlactones.” Organic letters 14, no. 13 (2012): 3288-3291. https://doi.org/10.1021/ol301243f
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI-1053575).” (pg. 3291)
Liu, Peng, Xiufang Xu, Xiaofei Dong, Benjamin K. Keitz, Myles B. Herbert, Robert H. Grubbs, and K. N. Houk. “Z-selectivity in olefin metathesis with chelated Ru catalysts: computational studies of mechanism and selectivity.” Journal of the American Chemical Society 134, no. 3 (2012): 1464-1467. https://doi.org/10.1021/ja2108728
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg 1467)
Nosrati, Geoffrey Ryan. “Computational Methods for Analysis and Redesign of Enzyme Active Sites.” (2012). https://escholarship.org/uc/item/52b1f9ff
“The SABER files are available to all UCLA users with Hoffman2 cluster accounts. The programs are located in the directories:” (pg. 73)
Vogt, Marissa Farland. “The Structure and Dynamics of Jupiter’s Magnetosphere.” (2012). https://escholarship.org/uc/item/39k2t3zn
“I also gratefully acknowledge generous computing resources provided by the UCLA Hoffman2 Cluster and NASA Advanced Supercomputing (NAS) Division at Ames Research Center, and the expert help of their staff.” (pg. xvi)
Wang, Hao, Philipp Kohler, Larry E. Overman, and K. N. Houk. “Origins of stereoselectivities of dihydroxylations of cis-bicyclo [3.3. 0] octenes.” Journal of the American Chemical Society 134, no. 38 (2012): 16054-16058. https://doi.org/10.1021/ja3075538
“Computing System at the National Center for Supercomputing Applications (NCSA) and on the IDRE Hoffman2 cluster at UCLA.” (pg. 16058)
Xu, Xiufang, Peng Liu, Adam Lesser, Lauren E. Sirois, Paul A. Wender, and K. N. Houk. “Ligand effects on rates and regioselectivities of Rh (I)-catalyzed (5+ 2) cycloadditions: a computational study of cyclooctadiene and dinaphthocyclooctatetraene as ligands.” Journal of the American Chemical Society 134, no. 26 (2012): 11012-11025. https://doi.org/10.1021/ja3041724
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg. 11024)
Yang, Xing, Peng Liu, K. N. Houk, and Vladimir B. Birman. “Manifestation of Felkin–Anh control in enantioselective acyl transfer catalysis: kinetic resolution of carboxylic acids.” Angewandte Chemie 124, no. 38 (2012): 9776-9780. https://doi.org/10.1002/ange.201203327
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the NSF.” (pg. 9776)
Yang, Xing, Valentina D. Bumbu, Peng Liu, Ximin Li, Hui Jiang, Eric W. Uffman, Lei Guo et al. “Catalytic, enantioselective N-acylation of lactams and thiolactams using amidine-based catalysts.” Journal of the American Chemical Society 134, no. 42 (2012): 17605-17612. https://doi.org/10.1021/ja306766n
“Calculations were performed on the Hoffman2 cluster at UCLA and the Extreme Science and Engineering Discovery Environment (XSEDE), which is supported by the National Science Foundation (OCI1053575).” (pg. 17611)
Zhang, Jin, and Anastassia N. Alexandrova. “Double σ-Aromaticity in a Surface-Deposited Cluster: Pd4 on TiO2 (110).” The journal of physical chemistry letters 3, no. 6 (2012): 751-754. https://doi.org/10.1021/jz300158s
“Most calculations were performed on the UCLA Hoffman2 shared cluster.” (pg. 753)
Fang, Jin, and Laurent Pilon. “Scaling laws for thermal conductivity of crystalline nanoporous silicon based on molecular dynamics simulations.” Journal of Applied Physics 110, no. 6 (2011): 064305. https://doi.org/10.1063/1.3638054
Grismayer, T., J. E. Fahlen, V. K. Decyk, and W. B. Mori. “On the time-dependent resonant width for Landau damping: theory and PIC simulation.” Plasma Physics and Controlled Fusion 53, no. 7 (2011): 074011. http://dx.doi.org/10.1088/0741-3335/53/7/074011
“Simulations were performed on the UCLA Hoffman2 cluster.” (pg. 11)
Huo, Yili. “Seismic response Assessment and improvement of highway bridges using fragility function method.” (2011). https://search.proquest.com/openview/780f58a04ca011b85e5752b2d9eec777/1?pq-origsite=gscholar&cbl=18750&diss=y&casa_token=M8RI3OIRykoAAAAA:fcd-ZhyhlhVwRkSqYkLsSaqvj3cBWY3tURNbBtguvDL6d63EKTNDtqck1dLaJB9p9z7FqlvhuBA
Lan, Yu, Steven E. Wheeler, and K. N. Houk. “Extraordinary difference in reactivity of ozone (OOO) and sulfur dioxide (OSO): a theoretical study.” Journal of chemical theory and computation 7, no. 7 (2011): 2104-2111. https://doi.org/10.1021/ct200293w
“Computations were performed on the National Science Foundation Terascale Computing System at the National Center for Supercomputing Applications (NCSA), on the California Nano Systems Institute clusters and UCLA Hoffman2 cluster, and using resources provided by the Texas A&M Supercomputing Facility.” (pg. 2109)
Liu, Peng, John Montgomery, and K. N. Houk. “Ligand steric contours to understand the effects of N-heterocyclic carbene ligands on the reversal of regioselectivity in Ni-catalyzed reductive couplings of alkynes and aldehydes.” Journal of the American Chemical Society 133, no. 18 (2011): 6956-6959. https://doi.org/10.1021/ja202007s
“Calculations were performed on the National Science Foundation Terascale Computing System at the NCSA and the Hoffman2 cluster at UCLA.” (pg. 6959)
May, Josh, John Tonge, Frederico Fiúza, R. A. Fonseca, L. O. Silva, Chuang Ren, and Warren B. Mori. “Mechanism of generating fast electrons by an intense laser at a steep overdense interface.” Physical Review E 84, no. 2 (2011): 025401. https://doi.org/10.1103/PhysRevE.84.025401
Tse, H. T. K., D. R. Gossett, A. Lee, A. Ellison, Y. Ying, R. Kulkarni, J. Rao, and D. Di Carlo. “Deformability Cytometry: Applications in Clinical Cancer Diagnostics.” In Proceedings of the 15th International Conference on Miniaturized Systems for Chemistry and Life Sciences, Seattle, WA, pp. 3-5. 2011. https://www.rsc.org/images/LOC/2011/PDFs/Papers/002_0868.pdf
“Finally, image analysis is performed using a custom MATLAB script on the UCLA ATS Hoffman2 cluster.” (pg. 4)
Tzoufras, M., A. R. Bell, P. A. Norreys, and F. S. Tsung. “A Vlasov–Fokker–Planck code for high energy density physics.” Journal of Computational Physics 230, no. 17 (2011): 6475-6494. https://doi.org/10.1016/j.jcp.2011.04.034
“Additionally, our work greatly benefited from our discussions with Drs. B. Reville, R. Duclous, R. M. G. Trines, V. Decyk, and B. Afeyan. Simulations were performed at the Hoffman2 cluster in UCLA.” (pg. 6492)
Winjum, B. J., F. S. Tsung, and W. B. Mori. “PIC Simulations of Stimulated Raman Scattering for NIF Scale Lengths and Density Profiles.” APS 53 (2011): NP9-089. https://ui.adsabs.harvard.edu/abs/2011APS..DPPNP9089W/abstract
Zhang, Jin, and Anastassia N. Alexandrova. “Structure, stability, and mobility of small Pd clusters on the stoichiometric and defective TiO2 (110) surfaces.” The Journal of chemical physics 135, no. 17 (2011): 174702. https://doi.org/10.1063/1.3657833
Zhou, Meng, Maha Ashour‐Abdalla, Xiaohua Deng, Mostafa El‐Alaoui, Robert L. Richard, and Raymond J. Walker. “Modeling substorm ion injection observed by the THEMIS and LANL spacecraft in the near‐Earth magnetotail.” Journal of Geophysical Research: Space Physics 116, no. A8 (2011). https://doi.org/10.1029/2010JA016391
2010
Um, Joann M., Osvaldo Gutierrez, Franziska Schoenebeck, K. N. Houk, and David WC MacMillan. “Nature of intermediates in organo-SOMO catalysis of α-arylation of aldehydes.” Journal of the American Chemical Society 132, no. 17 (2010): 6001-6005. https://doi.org/10.1021/ja9063074
“Computations were performed on the NSF TeraGrid resources provided by NCSA (CHE0400414) and the UCLA Academic Technology Services (ATS) Hoffman2 and IDRE clusters.” (pg. 6006)
Um, Joann M., Osvaldo Gutierrez, Franziska Schoenebeck, K. N. Houk, and David WC MacMillan. “Nature of Intermediates in Organo-SOMO Catalysis of r-Arylation of Aldehydes.” J. Am. Chem. Soc 132 (2010): 60016005. http://chemlabs.princeton.edu/macmillan/wp-content/uploads/sites/6/SOMOmechanism.pdf
“Computations were performed on the NSF TeraGrid resources provided by NCSA (CHE0400414) and the UCLA Academic Technology Services (ATS) Hoffman2 and IDRE clusters.” (pg. 6005)
Um, Joann M., Naeem S. Kaka, David M. Hodgson, and K. N. Houk. “Transition States and Origins of 1, 4‐Asymmetric Induction in Alkylations of 2, 2, 6‐Trialkylpiperidine Enamines.” Chemistry–A European Journal 16, no. 21 (2010): 6310-6316. https://doi.org/10.1002/chem.201000046
2009
Kashighandi, Pirooz. Demand fragility surfaces for bridges in liquefied laterally spreading ground. University of California, Los Angeles, 2009. https://search.proquest.com/openview/d038c293cee78caf768dbf0b355f6aa0/1?pq-origsite=gscholar&cbl=18750&diss=y&casa_token=HojzgKSJwnQAAAAA:XLB4OIH57vdAY8o_jhlQY92d6dxsZNOFPZv-30sfnA8EVwAwdvdeIFvp6oyqfUWe1RMTRj7OxKc
“Numerical modeling analyses were performed by utilizing the Hoffman2 cluster of the academic technology services (ATS) at UCLA.” (pg. xviii)
Zhang, Jian, and Yili Huo. “Evaluating effectiveness and optimum design of isolation devices for highway bridges using the fragility function method.” Engineering Structures 31, no. 8 (2009): 1648-1660. https://doi.org/10.1016/j.engstruct.2009.02.017
“The research utilizes the Hoffman2 cluster of Academic Technology Services (ATS) at University of California, Los Angeles to conduct most numerical simulations presented in this paper.” (pg. 1660)
2008
Zhang, Jian, Yili Huo, Scott J. Brandenberg, and Pirooz Kashighandi. “Effects of structural characterizations on fragility functions of bridges subject to seismic shaking and lateral spreading.” Earthquake Engineering and Engineering Vibration 7, no. 4 (2008): 369-382. https://idp.springer.com/authorize/casa?redirect_uri=https://link.springer.com/content/pdf/10.1007/s11803-008-1009-2.pdf&casa_token=BpwIun4o8FgAAAAA:WkGWsJZhZS7Ri7Co4NZkOGS9jNanfRoyeWb0Rj2f7V1DitWP3a9mTa0s0wICX8Q9BqI2C8qC7oxgtmuQoA
“The research utilizes the Hoffman2 cluster of Academic Technology Services (ATS) at University of California, Los Angeles, to conduct most numerical simulations.” (pg. 381)