2018 Publications

A selection of research using the Massachusetts Green High Performance Computing Center

Do you have news about research using computing resources at the MGHPCC? If you have an interesting project that you want to tell people about or a paper you would like listed, contact hlh@mit.edu


Hadas Alon, Chen Stern, Moshe Kirshner, Ofer Sinai, Michal Wasserman, Ryan Selhors, Raymond Gasper, Ashwin Ramasubramaniam, Todd Emrick, and Doron Naveh (2018), Lithographically Patterned Functional Polymer–Graphene Hybrids for Nanoscale Electronics, ACS Nano, 2018, 12 (2), pp 1928–1933, doi: 10.1021/acsnano.7b08844

Ross Altman, Yang-Hui He, Vishnu Jejjala, and Brent D. Nelson (2018), New large volume Calabi-Yau threefolds, Phys. Rev. D 97, 046003, doi: 10.1103/PhysRevD.97.04600

Cecilia Bores, Scott M. Auerbach, and Peter A. Monson (2018), Modeling the Role of Excluded Volume in Zeolite Structure Direction, 9 (13), pp 3703–3707, doi: 10.1021/acs.jpclett.8b01467

Cecilia Bores, Scott M. Auerbach and Peter A. Monson (2018), Enhanced replica exchange reactive Monte Carlo simulations for constructing zeolite frameworks, Journal Molecular Simulation, Volume 44, Issue 6: Engineered Self-assembly, Pages 453-462, doi: 10.1080/08927022.2017.1399375

Mengxi Chen, Andre R. Muniz, and Dimitrios Maroudas (2018), Formation and Mechanical Behavior of Nanocomposite Superstructures from Interlayer Bonding in Twisted Bilayer Graphene, ACS Appl. Mater. Interfaces, 2018, 10 (34), pp 28898–28908, doi : 10.1021/acsami.8b09741

Andrew E. Christie, Matthew C. Cieslak, Vittoria Roncalli, Petra H. Lenz, Kaley M. Major, Helen C. Poynton (2018), Prediction of a peptidome for the ecotoxicological model Hyalella azteca (Crustacea; Amphipoda) using a de novo assembled transcriptome, Marine Genomics, Volume 38, Pages 67-88, doi: 10.1016/j.margen.2017.12.003

Arash Deylamsalehi, Dylan A. P. Davis, Pegah Afsharlar, Mehdi Bahrami, Wei-Peng Chen, and Vinod M. Vokkarane (2018), Using Machine Learning to Balance Energy Cost and Emissions in Optical Networks, Journal of Optical Communications and Networking Vol. 10, Issue 10, pp. D72-D83, doi: 10.1364/JOCN.10.000D72

Dwaipayan Dasgupta, AshishKumar, DimitriosMaroudas (2018), Analysis of current-driven oscillatory dynamics of single-layer homoepitaxial islands on crystalline conducting substrates, Surface Science, Volume 669, Pages 25-33, doi: 10.1016/j.susc.2017.10.027

Dylan A. P. Davis and Vinod M. Vokkarane (2018), Generalized Survivability Models for Many-to-Many Communication, 2018 International Conference on Computing, Networking and Communications (ICNC), doi: 10.1109/ICCNC.2018.8390305

Ethan D. Evans and Bradley L. Pentelute (2018), Studies on a landscape of perfluoroaromatic-reactive peptides, Organic and Biomolecular Chemistry, doi:  10.1039/c8ob01678j

Gerrie P. Farman, Michael J. Rynkiewicz, Marek Orzechowski, William Lehman, Jeffrey R. Moore (2018), HCM and DCM cardiomyopathy-linked α-tropomyosin mutations influence off-state stability and crossbridge interaction on thin filaments, Archives of Biochemistry and Biophysics, Volume 647, Pages 84-92, doi: 10.1016/j.abb.2018.04.002

Haiying Gao (2018), Three-dimensional variations of the slab geometry correlate with earthquake distributions at the Cascadia subduction system, Nature Communications, volume 9, Article number: 1204 (2018), doi: s41467-018-03655-5

Jacob M. Goldberg, Fang Wang, Chanan D. Sessler, Nathan W. Vogler, Daniel Y. Zhang, William H. Loucks, Thanos Tzounopoulos, and Stephen J. Lippard (2018), Photoactivatable Sensors for Detecting Mobile Zinc, Journal of the American Chemical Society, 140 (6), pp 2020–2023, doi: 10.1021/jacs.7b12766

Bhatia, Hemlata (2018), Understanding the Impact of Zinc on CHO Cell Transcriptome, University of Massachusetts, Lowell, Doctoral Dissertation, https://search.proquest.com/openview/1f658a7147141ab23846c82b8c5d40cd

Ishan Prasad, Hiroshi Jinnai, Rong-Ming Ho, Edwin L. Thomas and  Gregory M. Grason (2018), Anatomy of triply-periodic network assemblies: characterizing skeletal and inter-domain surface geometry of block copolymer gyroids, Soft Matter, 2018,14, 3612-3623, doi: 10.1039/C8SM00078F

M. Kumar, W. P. Horn, J. Kepner, J. E. Moreira, P. Pattnaik (2018), IBM POWER9 and cognitive computing, IBM Journal of Research and Development, doi: 10.1147/JRD.2018.2846958

Xinzhi Li, Amit Das, and Dapeng Bi (2018), Biological tissue-inspired tunable photonic fluid, PNAS, doi: 10.1073/pnas.1715810115

David P. Markt, Ashish Pathak, Mehdi Raessi (2018), Advanced Computational Simulations of Surface Impingement of a Train of Ethanol Drops: A Pathway to Developing Spray-Wall Interaction Submodels, Computing in Science & Engineering, doi: 10.1109/MCSE.2018.042781326

Aude Nicolas et al. (2018), Genome-wide Analyses Identify KIF5A as a Novel ALS Gene, Neuron, Volume 97, Issue 6, Pages 1268-1283.e6, doi: 10.1016/j.neuron.2018.02.027

Stella S. R. Offner and Yue Liu (2018), Turbulent Action at a Distance due to Stellar Feedback in
Magnetized Clouds, arXiv: 1809.03513 [astro-ph.SR]

Sampath K. Rachakonda, Yue Wang, David P. Schmidt (2018), Flash-boiling Initialization for Spray Simulations Based on Parametric Studies, Atomization and Sprays, Volume 28, Issue 2, doi: 10.1615/AtomizSpr.2018020769

Patrick A. Ray, Laura Bonzanigo, Sungwook Wi, Yi-Chen E. Yang, Pravin Karki, Luis E. García, Diego J. Rodriguez, Casey M. Brown (2018), Multidimensional stress test for hydropower investments facing climate, geophysical and financial uncertainty, Global Environmental Change, Volume 48, Pages 168-181, doi: 10.1016/j.gloenvcha.2017.11.013

Abhiram Reddy, Michael B. Buckley, Akash Arora, Frank S. Bates, Kevin D. Dorfman, Gregory M. Grason (2018), Stable Frank-Kasper phases of self-assembled, soft matter spheres, arXiv:1806.01726 [cond-mat.soft]

Albert Reuther, Chansup Byun, William Arcand, David Bestor, Bill Bergeron, Matthew Hubbell, Michael Jones, Peter Michaleas, Andrew Prout, Antonio Rosa, Jeremy Kepner (2018), Scalable system scheduling for HPC and big data, Journal of Parallel and Distributed Computing, Volume 111, January 2018, Pages 76-92, doi: 10.1016/j.jpdc.2017.06.009

P. Rodriguez-Fernandez, A. E. White, A. J. Creely, M. J. Greenwald, N. T. Howard, F. Sciortino and J. C. Wright (2018), VITALS: A Surrogate-Based Optimization Framework for the Accelerated Validation of Plasma Transport Codes, Fusion Science and Technology, Volume 74, 2018 – Issue 1-2, doi: 10.1080/15361055.2017.1396166

Nestor A. Sepulveda, Jesse D. Jenkins, Fernando J. de Sisternes, Richard K. Lester (2018), The Role of Firm Low-Carbon Electricity Resources in Deep Decarbonization of Power Generation, Joule, doi: 10.1016/j.joule.2018.08.006

Jayson R Vavrek, Brian S Henderson, Areg Danagoulian (2018), High-accuracy Geant4 simulation and semi-analytical modeling of nuclear resonance fluorescence, arXiv:1807.01701 [physics.ins-det]

Camille Washington-Ottombre and Siiri Bigalke (2018), An aggregated and dynamic analysis of innovations in campus sustainability, International Journal of Sustainability in Higher Education, vol 18, issue 2, doi: 10.1108/IJSHE-05-2017-0071

Joanna M. Wolfe and Gregory P. Fournier (2018), Horizontal gene transfer constrains the timing of methanogen evolution, Nature Ecology & Evolution, volume 2, pages 897–903, doi: 10.1038/s41559-018-0513-7

Xiaotao Yang and Haiying Gao (2018), Full‐Wave Seismic Tomography in the Northeastern United States: New Insights Into the Uplift Mechanism of the Adirondack Mountains, Journal of Geophysical Research Letters, doi: 10.1029/2018GL078438