Author

Eugene Shakhnovich

Harvard University

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

Biology Disciplines

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Systems Biology· 2 Biophysics· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Organism:E. coli· 2 Approach:experimental assay· 2 Assay:proteomics· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Assay:protein sequence· 1 Research Focus:protein structure prediction· 1

Frequent Co-Authors

Amy Gilson· 2 shared Sanchari Bhattacharyya· 2 shared Shimon Bershtein· 2 shared Adrian Serohijos· 1 shared Aniruddha ChattarajiD· 1 shared Buddhapriya ChakrabartiiD· 1 shared Hugo Jacquin· 1 shared Jeong-Mo Choi· 1 shared

Activity by Year

2015-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 15 mutual co-author links

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2 shared papersSystems Biology

Amy Gilson

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4 papers

Recent·Most cited

Linker stretching optimizes bonding entropy in sticker-spacer condensates

Sk Ashif Akram, Junlang Liu, Aniruddha Chattaraj, Sanjeev Gautam, Buddhapriya Chakrabarti, Eugene Shakhnovich, Jeremy D. Schmit

The paper develops a mean-field theory to show that linker stretching optimizes bonding entropy in sticker-spacer condensates by canceling length-dependent terms, supporting decoupling approximations.

bioRxiv · Oct 11, 2026 · PreprintBiophysics

Transient protein-protein interactions perturb E.coli metabolome and cause gene dosage toxicity

Sanchari Bhattacharyya, Shimon Bershtein, Jin Yan, Tijda Argun, Amy Gilson, Sunia Trauger, Eugene Shakhnovich

This study shows that overexpression of DHFR in E. coli causes metabolic imbalance and gene dosage toxicity through interactions with metabolic enzymes, while orthologous DHFRs from other species show reduced effects due to evolutionary divergence.

bioRxiv · Jul 27, 2016Systems Biology

Benchmarking inverse statistical approaches for protein structure and design with exactly solvable models

Hugo Jacquin, Amy Gilson, Eugene Shakhnovich, Simona Cocco, Rémi Monasson

This paper benchmarks inverse statistical methods for protein structure and design using exactly solvable lattice protein models, showing their ability to capture both positive and negative design principles.

PLOS Computational Biology · May 13, 2016Peer-reviewedGenomics

Protein homeostasis imposes a barrier on functional integration of horizontally transferred genes in bacteria

Shimon Bershtein, Adrian Serohijos, Sanchari Bhattacharyya, Michael Manhart, Jeong-Mo Choi, Wangmen Mu, Jingwen Zhou, Eugene Shakhnovich

This study shows that protein homeostasis limits the functional integration of horizontally transferred genes in bacteria by reducing the abundance of foreign proteins, and that this barrier can be overcome through evolutionary adaptation.

bioRxiv · Sep 1, 2015Systems Biology