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Phylogenetic corrections and higher-order sequence statistics in protein families: Potts vs multiple sequence alignment transformer machine learning models

Kisan Khatri1, Ronald M. Levy2, and Allan Haldane1,*

  • 1Department of Physics and Center for Biophysics and Computational Biology, Temple University, Philadelphia, Pennsylvania 19122, USA
  • 2Department of Chemistry and Center for Biophysics and Computational Biology, Temple University, Philadelphia, Pennsylvania 19122, USA

  • *Contact author: allan.haldane@temple.edu

Results of a Large-Scale Study of the Binding of 50 Type II Inhibitors to 348 Kinases: The Role of Protein Reorganization

Vardan H. Vardanyan, Allan Haldane, Howook Hwang, Dilek Coskun, Muyun Lihan, Edward B. Miller, Richard A. Friesner, and Ronald M. Levy

J. Med. Chem. 69 9507 (2026)

Phylogenetic corrections and higher-order sequence statistics in protein families: Potts vs multiple sequence alignment transformer machine learning models

Kisan Khatri, Ronald M. Levy, and Allan Haldane

Phys. Rev. Research 7 043077 (2025)

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