Author

Heng Ma

Argonne National LaboratoryORCID 0000-0002-7667-922XUnclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:deep learning· 3 Research Focus:benchmarking· 2 Research Focus:dimensionality reduction· 1 Approach:large language model· 1 Approach:mechanistic / dynamical model· 1 Research Focus:protein folding & dynamics· 1 Assay:protein structure· 1 Research Focus:software / tool· 1

Frequent Co-Authors

Arvind RamanathaniD· 4 shared Alexander BraceiD· 2 shared Animashree AnandkumariD· 1 shared Arash VahdatiD· 1 shared Austin ClydeiD· 1 shared Ayush GuptaiD· 1 shared Bharat KaleiD· 1 shared Bin ZhangiD· 1 shared

Activity by Year

2019-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 30 mutual co-author links

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4 shared papersBiophysics

Arvind RamanathanORCID

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4 papers

Recent·Most cited

Mechanistic insights into the association and activation of the SARS-CoV-2 2'-O-Methyltransferase (NSP16)

Heng Ma, Alexander Brace, Mónica Rosas‐Lemus, S. Chakra Chennubhotla, K.J.F. Satchell, Arvind Ramanathan

This study uses molecular dynamics simulations and AI/ML to elucidate how nsp10 activates nsp16's methylation function by stabilizing its SAM pocket and enabling RNA binding.

bioRxiv · Apr 16, 2026 · PreprintBiophysics

A Deep Learning-Driven Sampling Technique to Explore the Phase Space of an RNA Stem-Loop

Ayush Gupta, Heng Ma, Arvind Ramanathan, Gül H. Zerze

This paper adapts a deep learning-driven sampling technique for RNA stem-loop folding, showing it can efficiently explore phase space with lower computational cost than traditional methods.

Journal of Chemical Theory and Computation · Oct 7, 2024Peer-reviewedBiophysics

GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics.

Maxim Zvyagin, Alexander Brace, Kyle Hippe, Yuntian Deng, Bin Zhang, Cindy Orozco Bohorquez, Austin Clyde, Bharat Kale, Danilo Perez-Rivera, Heng Ma, Carla M. Mann, Michael Irvin, Defne Gorgun, Natalia Vassilieva, J. Gregory Pauloski, , Arvind Ramanathan

GenSLMs use large language models to analyze SARS-CoV-2 genomes, enabling rapid identification of variants of concern and providing insights into evolutionary dynamics.

The International Journal of High Performance Computing Applications · Oct 27, 2023Peer-reviewedBioinformatics

Visual Analytics for Deep Embeddings of Large Scale Molecular Dynamics Simulations

Junghoon Chae, Debsindhu Bhowmik, Heng Ma, Arvind Ramanathan, Chad A. Steed

The paper develops an interactive visual analytics system to evaluate and analyze deep embeddings of large-scale molecular dynamics simulations.

IEEE International Conference on Big Data (BigData) · Dec 1, 2019Peer-reviewedBioinformatics