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August 2025 Publications

September 3, 2025

Electrically-tunable superlattice bilayer graphene? Alzheimer’s disease biomarker assessment? Generative reaction mechanism prediction? A selection of recent publications featuring research using the MGHPCC.

Aggarwal, Sarika et al (2025), Severe flooding and cause-specific hospitalisation among older adults in the USA: a retrospective matched cohort analysis, The Lancet Planetary Health, doi: 10.1016/S2542-5196(25)00132-9 

Amoudruz, Lucas et al (2025), Ising energy model for the stochastic prediction of tumor islets, arXiv: 2508.20804 [physics.med-ph] 

Atlam, Nabil et al (2025), Giant Shift Current in Electrically-Tunable Superlattice Bilayer Graphene, arXiv: 2508.09465 [cond-mat.mes-hall] 

Bachar, Luca Gomez et al (2025), Evolution of linear matter perturbations with error bounded bundle physics-informed neural networks, arXiv: 2508.08443 [astro-ph.CO] 

Bhattacharya, Arindam et al (2025), Observable Optimization for Precision Theory: Machine Learning Energy Correlators, arXiv: 2508.10988 [hep-ph] 

Chakraborty, Joheen et al (2025), Prospects for EMRI/MBH parameter estimation using Quasi-Periodic Eruption timings: short-timescale analysis, arXiv: 2508.20162 [astro-ph.HE]  

Chan, A., Kirtane, A.R., Qu, Q.R. et al (2025), Designing lipid nanoparticles using a transformer-based neural network, Nat. Nanotechnol., doi: 10.1038/s41565-025-01975-4 

Chandra, Vedant et al (2025), Mapping the Distant and Metal-Poor Milky Way with SDSS-V, arXiv: 2508.00978 [astro-ph.GA]  

Justin Finkel and Paul A. O’Gorman (2025), Boosting Ensembles for Statistics of Tails at Conditionally Optimal, arXiv:2507.22310 [physics.ao-ph] 

Justin Finkel and Paul A. O’Gorman (2025), Rare event sampling for moving targets: extremes of temperature and daily precipitation in a general circulation model, arXiv: 2508.13120 [physics.ao-ph] 

Marquez, Garcia et al (2025), Environment90m – globally standardized environmental variables for spatial freshwater biodiversity science at high spatial resolution, Earth Syst. Sci. Data Discuss., doi: 10.5194/essd-2025-399

Jasodanand, V.H., Kowshik, S.S., Puducheri, S. et al (2025), AI-driven fusion of multimodal data for Alzheimer’s disease biomarker assessment, Nat Commun, doi: 10.1038/s41467-025-62590-4 

Ji, Kaihua and Alain Karma (2025), Parity Breaking at Faceted Crystal Growth Fronts during Ice Templating, arXiv: 2508.18403 [cond-mat.mtrl-sci] 

Ji, Kaihua and Alain Karma (2025), Phase-Field Model of Freeze Casting, arXiv: 2508.18416 [cond-mat.mtrl-sci]  

Joung, J.F., Fong, M.H., Casetti, N. et al. (2025), Electron flow matching for generative reaction mechanism prediction, Nature, doi: 10.1038/s41586-025-09426-9 

Krishnan, Aarti et al (2025), A generative deep learning approach to de novo antibiotic design, Cell, doi: 10.1016/j.cell.2025.07.033 

Legault, Robin et al (2025), Integrated Bus Fleet Electrification Planning Through Accelerated Logic-Based Benders Decomposition and Restriction Heuristics, arXiv: 2508.05863 [math.OC] 

Liveoak et al (2025), Self-consistent Dynamical and Chaotic Tides in the REBOUNDx Framework, ApJ, doi: 10.3847/1538-4357/adefe7 

Makhija, Neha and Wolfgang Gatterbauer (2025), Is Integer Linear Programming All You Need for Deletion Propagation? A Unified and Practical Approach for Generalized Deletion Propagation, PVLDB, doi:10.14778/3742728.3742756 

Merk, Liana N et al (2025), Presence of group II introns in phage genomes, Nucleic Acids Research, doi: 10.1093/nar/gkaf761 

Novoseltseva, Anna et al (2025), Imaging myelin degradation in ex vivo prefrontal cortex tissue blocks in Alzheimer’s disease and chronic traumatic encephalopathy, Alzheimer's and Dementia, doi: 10.1002/alz.70582

Randolph C., Michaleas A. and Ricke D.O .(2025), Large language models for closed-library multi-document query, test generation, and evaluation, Front. Artif. Intell., doi: 10.3389/frai.2025.1592013 

Rashid, Sharaf et al (2025), Evaluating Prompt Injection Attacks with LSTM-Based Generative Adversarial Networks: A Lightweight Alternative to Large Language Models, Mach. Learn. Knowl. Extr., doi: 10.3390/make7030077 

Reddy, Aidan P. and Liang Fu (2025), Quantum melting a Wigner crystal into Hall liquids, arXiv: 2508.21000 [cond-mat.mes-hall] 

Sakurada, Tomoaki et al (2025), Systematic Bandgap Engineering of a 2D Organic–Inorganic Chalcogenide Semiconductor via Ligand Modification, J. Am. Chem. Soc., doi: 10.1021/jacs.5c07989 

Sam, Alan Sam et al (2025), Beyond Pairwise Interactions: How Interfacial Polarization Modulates Water Flow in Graphene Nanochannels, ACS Surfaces, Interfaces, and Applications, doi: 10.1021/acsami.5c10054 

Schumm, Gabe et al (2025), Single-particle dispersion and density of states of the half-filled two-dimensional Hubbard model, Phys. Rev. B, doi: 10.1103/8dnp-w7c6 

Siew, P.M., Solera, H.E., Lavezzi, G. et al (2025), AI Challenge for Satellite Pattern-of-Life Identification: Dataset, Design and Results, J Astronaut Sci, doi: 10.1007/s40295-025-00515-5 

Tariq, Ifrah and Ernest Fraenkel (2025), Biologically Disentangled Multi-Omic Modeling Reveals Mechanistic Insights into Pan-Cancer Immunotherapy Resistance, arXiv: 2508.18638 [cs.LG]

Wang, Peidong et al (2025), Ocean Outgassing of Methyl Chloroform as an Underestimated Source of Emission, ESS Open Archive, doi: 10.22541/essoar.175510608.85731700

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 

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MGHPCC Publications

Research projects

A Future of Unmanned Aerial Vehicles
Yale Budget Lab
Volcanic Eruptions Impact on Stratospheric Chemistry & Ozone
The Rhode Island Coastal Hazards Analysis, Modeling, and Prediction System
Towards a Whole Brain Cellular Atlas
Tornado Path Detection
The Kempner Institute - Unlocking Intelligence
The Institute for Experiential AI
Taming the Energy Appetite of AI Models
Surface Behavior
Studying Highly Efficient Biological Solar Energy Systems
Software for Unreliable Quantum Computers
Simulating Large Biomolecular Assemblies
SEQer - Sequence Evaluation in Realtime
Revolutionizing Materials Design with Computational Modeling
Remote Sensing of Earth Systems
QuEra at the MGHPCC
Quantum Computing in Renewable Energy Development
Pulling Back the Quantum Curtain on ‘Weyl Fermions’
New Insights on Binary Black Holes
NeuraChip
Network Attached FPGAs in the OCT
Monte Carlo eXtreme (MCX) - a Physically-Accurate Photon Simulator
Modeling Hydrogels and Elastomers
Modeling Breast Cancer Spread
Measuring Neutrino Mass
Investigating Mantle Flow Through Analyses of Earthquake Wave Propagation
Impact of Marine Heatwaves on Coral Diversity
IceCube: Hunting Neutrinos
Genome Forecasting
Global Consequences of Warming-Induced Arctic River Changes
Fuzzing the Linux Kernel
Exact Gravitational Lensing by Rotating Black Holes
Evolution of Viral Infectious Disease
Evaluating Health Benefits of Stricter US Air Quality Standards
Ephemeral Stream Water Contributions to US Drainage Networks
Energy Transport and Ultrafast Spectroscopy Lab
Electron Heating in Kinetic-Alfvén-Wave Turbulence
Discovering Evolution’s Master Switches
Dexterous Robotic Hands
Developing Advanced Materials for a Sustainable Energy Future
Detecting Protein Concentrations in Assays
Denser Environments Cultivate Larger Galaxies
Deciphering Alzheimer's Disease
Dancing Frog Genomes
Cyber-Physical Communication Network Security
Avoiding Smash Hits
Analyzing the Gut Microbiome
Adaptive Deep Learning Systems Towards Edge Intelligence
Accelerating Rendering Power
ACAS X: A Family of Next-Generation Collision Avoidance Systems
Neurocognition at the Wu Tsai Institute, Yale
Computational Modeling of Biological Systems
Computational Molecular Ecology
Social Capital and Economic Mobility
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