Author

Shrishti Barethiya

University of Massachusetts Amherst

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

Click to filter author papers

Bioinformatics· 3 Biophysics· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Assay:protein structure· 3 Approach:deep learning· 2 Assay:protein sequence· 2 Approach:statistical model· 2 Research Focus:differential expression· 1 Organism:human· 1 Approach:machine learning (classical)· 1 Research Focus:protein folding & dynamics· 1

Frequent Co-Authors

Jianhan CheniD· 4 shared Anna G. GreeniD· 1 shared Erik B. NordquistiD· 1 shared Guohui ZhangiD· 1 shared Hui GuaniD· 1 shared Jian Wen HuangiD· 1 shared Jianmin CuiiD· 1 shared Jingyi ShiiD· 1 shared

Activity by Year

2023-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 25 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

4 shared papersBioinformatics

Jianhan ChenORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

FARM: Forecasting Antibiotic Resistance in Mycobacterium tuberculosis using biophysics and machine learning

Mahbuba Tasmin, Shrishti Barethiya, Yu Wang, Lulu Kang, Jianhan Chen, Anna G. Green

The paper develops FARM, a framework to predict antibiotic resistance in Mycobacterium tuberculosis by combining biophysical and machine learning features, achieving high accuracy in distinguishing resistance-associated variants.

bioRxiv · Jul 25, 2026 · PreprintBioinformatics

HyRes: Accurate Physics-Based Simulation of Dynamic Protein Structures and Interactions in Complex Environments at Scale

Shanlong Li, Shrishti Barethiya, Jianhan Chen

HyRes simulates dynamic protein structures and interactions for IDPs, showing high accuracy across environments and generating ensembles for thousands of human IDPs.

bioRxiv · Jun 24, 2026 · PreprintBiophysics

Overcoming Extrapolation Challenges of Deep Learning by Incorporating Physics in Protein Sequence-Function Modeling

Shrishti Barethiya, Jian Wen Huang, Xiao Liu, Hui Guan, Jianhan Chen

This paper improves deep learning models for protein sequence-function prediction by integrating physical principles to enhance extrapolation performance.

bioRxiv · Nov 9, 2025 · PreprintBioinformatics

Incorporating physics to overcome data scarcity in predictive modeling of protein function: a case study of BK channels

Erik B. Nordquist, Guohui Zhang, Shrishti Barethiya, Nathan Ji, Kelli M. White, Lu Han, Zhiguang Jia, Jingyi Shi, Jianmin Cui, Jianhan Chen

The paper develops a predictive model for BK channel voltage gating using physics-based features and random forest, achieving accurate predictions with limited mutational data.

PLoS Computational Biology · Sep 15, 2023Peer-reviewedBioinformatics