Alexey I Nesvizhskii, PhD
Godfrey Dorr Stobbe Professor of Bioinformatics
Professor of Pathology
Professor of Computational Medicine and Bioinformatics
Medical School
[email protected]

Available to mentor
Alexey I Nesvizhskii, PhD
Professor
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  • Recent Publications
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    Center Memberships
    • Center Member
      Rogel Cancer Center
    Recent Publications See All Publications
    • Journal Article
      Deep learning to decode sites of RNA translation in normal and cancerous tissues
      Clauwaert J, McVey Z, Gupta R, Yannuzzi I, Basrur V, Nesvizhskii AI, Menschaert G, Prensner JR. Nature Communications, 2025 Dec 1; 16 (1): DOI:10.1038/s41467-025-56543-0
      PMID: 39894899
    • Journal Article
      diaTracer enables spectrum-centric analysis of diaPASEF proteomics data
      Li K, Teo GC, Yang KL, Yu F, Nesvizhskii AI. Nature Communications, 2025 Dec 1; 16 (1): DOI:10.1038/s41467-024-55448-8
      PMID: 39747075
    • Preprint
      A modular, Galaxy-based immunopeptidogenomic (iPepGen) analysis pipeline for discovery, verification, and prioritization of candidate cancer neoantigen peptides
      Mehta S, Wagner R, T. K, Johnson JE, Yu F, Jubenville T, Richards K, Coleman S, Popescu FE, Nesvizhskii AI, Largaespada DA, Jagtap PD, Griffin TJ. 2025 Apr 10; bioRxiv, DOI:10.1101/2025.04.07.647596
    • Journal Article
      MSFragger-DDA+ enhances peptide identification sensitivity with full isolation window search.
      Yu F, Deng Y, Nesvizhskii AI. Nat Commun, 2025 Apr 8; 16 (1): 3329 DOI:10.1038/s41467-025-58728-z
      PMID: PMC11978857
    • Preprint
      A Novel Algorithm for the Harmonization of Pan-cancer Proteomics
      Simchi N, Givton O, Rinberg J, Shtrikman A, Geiger T, Nesvizhskii AI, Seger E, Pevzner K. 2025 Mar 21; bioRxiv, DOI:10.1101/2025.03.17.642820
    • Preprint
      PepCentric Enables Fast Repository-Scale Proteogenomics Searches.
      Yu F, Kong AT, Hsiao Y, Nesvizhskii AI. 2025 Feb 28; DOI:10.1101/2025.02.24.639867
      PMID: 40060692
    • Preprint
      Spatial distribution of the proteome in human body and cancers
      Yue L, Jiang W, Li S, Luo M, Fan N, Zhan X, Chen K, Lu T, Guo F, Li D, Ge W, Nie Z, Lyu M, Jun A, Wang Y, Chen Y, Fu Z, Xiang N, Li L, Yu F, Teo GC, Nesvizhskii AI, Wang M, Snyder MP, Collins B, Aebersold R, Xu F, Zhu Y, Liu T, Li Y, Guo T. 2025 Feb 20; bioRxiv, DOI:10.1101/2025.02.14.638212
    • Proceeding / Abstract / Poster
      PepCentric fast-tracks peptide searching and validation with repository-scale mass spectrometry data
      Yu F, Kong A, Hsiao Y, Nesvizhskii A. 2025 Feb 22;
    Featured News & Stories
    Department News
    K. Yang is first author in "Nature Communications"
    Congratulations to Kevin Yang (PhD student in the Nesvizhskii lab) on his first first-author publication in "Nature Communications!" 
         Brian Athey, Alexey Nesvizhskii, Charles Parkos
    Department News
    Dr. Alexey Nesvizhskii named inaugural Godfrey Dorr Stobbe Professor of Bioinformatics
    Dr. Alexey Nesvizhskii named inaugural Godfrey Dorr Stobbe Professor of Bioinformatics