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July 2025 Publications

August 8, 2025

Quantum and classical annealing? Transkingdom gut dysbiosis in metabolic dysfunction-associated steatotic liver disease? Containerized Climate Raster Information Extraction? A selection of recent publications featuring research using the MGHPCC.

Barrera, O. et al 92025), Analytic Regression of Feynman Integrals from High-Precision Numerical Sampling, arXiv: 2507.17815 [hep-th]  

Bielajew, R. et al (2025), Gyrokinetic profile prediction and validation of a negative triangularity plasma in ASDEX Upgrade, Nucl. Fusion, doi: 10.1088/1741-4326/adef68

Cadiz-Leyton, Martina et al (2025), Astro-MoE: Mixture of Experts for Multiband Astronomical Time Series, https://arxiv.org/pdf/2507.12611 [astro-ph.IM] 

Chen, X., Cao, Y., Pan, J. et al. (2025), Coupled lattice-charge-magnetic fluctuations for nonlocal flux-mediated pairing in cuprate superconductors, npj Comput Mater, doi: 10.1038/s41524-025-01697-0 

Chiong, Gabriel Zhen (2025), Modeling Astronomical Data Using Deep Learning by Integrating Embeddings, Harvard University ProQuest Dissertations & Theses,  2025, 32122713 

Dimitriyev, Micheal S. et al (2025), Not even metastable: Cubic double-diamond in diblock copolymer melts, arXiv: 2507.07361 [cond-mat.soft]  

Dutta, I (2025), The Changing Role of Reactive Nitrogen in the Troposphere, MIT Doctoral Dissertation,  

Edwards, Nicholas et al (2025), REXBENCH: Can coding agents autonomously implement AI research extensions? arXiv: 2506.22598 [cs.CL]

Fanari, Oleksandra et al (2025), Protocol for differential analysis of pseudouridine modifications using nanopore DRS and unmodified transcriptome control, Science Direct, doi: 10.1016/j.xpro.2025.103948 

Gauron, M.C. et al (2025), A PKCη missense mutation enhances Golgi-localized signaling and is associated with recessively inherited familial Alzheimer’s disease, Science Signaling, doi: 10.1126/scisignal.adv0970 

Geier, Max et al (2025), Self-attention neural network for solving correlated electron problems in solids, Phys. Rev. B, doi: 10.1103/qxc3-bkc7 

Hung, Yi-Chun Hung et al (2025), Tunable Competing Electronic Orders in Double Quantum Spin Hall Superlattices, arXiv: 2506.22715 [cond-mat.mes- hall]  

Hung, Yi-Chun Hung et al (2025), Geometry-driven moiré engineering in twisted bilayers hosting high-pseudospin fermions, Phys. Rev. B, doi: 10.1103/3kws-k867 

Jain, Devika et al (2025), RINX 2.0: A Containerized Climate Raster Information Extraction System on OpenShift Cloud Environment, ISPRS Ann. Photogramm. Remote Sens. Spatial Inf. Sci., X-G-2025, 391–395, doi: 10.5194/isprs-annals-X-G-2025-391-2025

Kim, Donghyun and Themistoklis Sapsis (2025), Forecasting Lift of Airfoil Randomly Maneuvering Under Dynamic Stall Conditions, AIAA Journal, doi: 10.2514/1.J065437 

Kim, H., Nelson, P., Nzabarushimana, E. et al (2025), Multi-omic analysis reveals transkingdom gut dysbiosis in metabolic dysfunction-associated steatotic liver disease, Nat Metab, doi: 10.1038/s42255-025-01318-6 

Konietzka, Ralf M. et al (2025), Ray-tracing Fast Radio Bursts Through IllustrisTNG: Cosmological Dispersion Measures from Redshift 0 to 5.5, arXiv: 2507.07090 [astro-ph.CO]  

Kouper, I et al (2025), Sustaining Research Computing and Cyberinfrastructure through Heterogeneous Funding and Collaboration, PEARC ’25, July 20–24, 2025, Columbus, OH, USA, doi: 10.1145/3708035.3736064

Markovich Z. (2025), Estimating the Local Average Treatment Effect Without the Exclusion Restriction, Political Analysis, doi: 10.1017/pan.2025.10005 

Sangram Prusty, Rafael Brüschweiler, and Qiang Cui (2025), Comparative Analysis of Polarizable and Nonpolarizable CHARMM Family Force Fields for Proteins with Flexible Loops and High Charge Density, Journal of Chemical Information and Modeling Article ASAP, doi: 10.1021/acs.jcim.5c01328 

Pussi, K. et al (2025), Local atomic structure of amorphous Fe81−xCoxNb7B12 alloys using synchrotron radiation x-ray diffraction and pair-distribution function analysis, Applied Physics Letters, doi: 10.1063/5.0264836 

Qin, Yulul et al (2025), Vision-and-Language Training Helps Deploy Taxonomic Knowledge but Does Not Fundamentally Alter It, arXiv: 2507.13328 [cs.CL]  

Riesel, Eric A. et al (2025), Planar Defect Layers Template a High-Pressure InBi Polymorph, J. Am. Chem. Soc., doi: 10.1021/jacs.5c06253

Tazin, Alexey and Mieczyslaw M. Kokar (2025), UML Class Diagram Classification Using Category Theory, J. of Software Engineering and Application, doi: 10.4236/jsea.2025.187014 

Truskey, S. et al (2025), Non-Random Mortality in an Experimental Oyster Restoration, Evolutionary Applications, doi: 10.1111/eva.70128

Vega, Sofia L. and Rachel C. Nethery (2025), Practical considerations for Gaussian Process modeling for causal inference quasi-experimental studies with panel data, arXiv: 2507.05128 [stat.ME] 

Weinberg, P. et al (2025), Defects and their Time Scales in Quantum and Classical Annealing
of the Two-Dimensional Ising Model, arXiv: 2507.09273 [quant-ph]  

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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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