Author

Vidur Sarma

Rutgers, The State University of New JerseyORCID 0000-0002-7283-9556Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:protein structure prediction· 2 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1 Approach:graph neural network· 1 Research Focus:protein design· 1 Assay:protein sequence· 1 Assay:protein structure· 1 Approach:statistical model· 1

Frequent Co-Authors

Changpeng LuiD· 2 shared Joseph H. LubiniD· 2 shared Sagar D. KhareiD· 2 shared Aaliyah KhaniD· 1 shared Alan Trudeau· 1 shared Ali A. KhaniD· 1 shared Allison Rupert· 1 shared Andrew SamiD· 1 shared

Activity by Year

2020-2023 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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2 shared papersBioinformatics

Changpeng LuORCID

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2 papers

Recent·Most cited

Prediction and Design of Protease Enzyme Specificity Using a Structure-Aware Graph Convolutional Network

Changpeng Lu, Joseph H. Lubin, Vidur Sarma, Samuel Z. Stentz, Guanyang Wang, Sijian Wang, Sagar D. Khare

This paper introduces PGCN, a structure-aware graph convolutional network for predicting protease specificity and designing proteases, showing accurate predictions and successful experimental validation.

Proceedings of the National Academy of Sciences · Sep 20, 2023Peer-reviewedBioinformatics

Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first six months of the COVID-19 pandemic

Joseph H. Lubin, Christine Zardecki, Elliott M. Dolan, Changpeng Lu, Zhuofan Shen, Shuchismita Dutta, John Westbrook, Brian P. Hudson, David S. Goodsell, Jonathan K. Williams, Maria Voigt, Vidur Sarma, Lingjun Xie, Thejasvi Venkatachalam, Steven Arnold, , Stephen Kevin Burley

The paper analyzes 3D structural changes in SARS-CoV-2 proteins during the first six months of the pandemic, showing amino acid substitutions primarily affect surfaces and boundary layers.

bioRxiv · Dec 1, 2020 · PreprintMolecular Biology