This profile is built from public research funding records (CIHR, NSERC and SSHRC) and PubMed. We have not imported them from a University of Waterloo directory, so their courses may be missing. Find their university profile.
Research
Latest papers
AI proteomics: from protein identification to virtual cells.
Nature methods · 2026
Zero-shot de novo peptide sequencing with open posttranslational modification discovery.
Nature biotechnology · 2026 · senior author
From Levin's Universal Search to Policy-Guided Tree Search.
Entropy (Basel, Switzerland) · 2026 · first author
Latest funding
- $150,000
Advanced computational server required in protein sequencing
NSERC · 2025 · Principal investigator
- $165,000
Kolmogorov complexity and algorithms for immunopeptidomics
NSERC · 2022 · Principal investigator
- $378,000
Kolmogorov complexity and its applications
NSERC · 2016 · Principal investigator
41 publications.
AI proteomics: from protein identification to virtual cells.
Sun Y, A J, Liu Z, Sun R, Qian L, Payne SH, Bittremieux W, Ralser M, Li C, Chen Y, Dong Z, Perez-Riverol Y, Khan A, Sander C, Aebersold R, Vizcaíno JA, Krieger JR, Yao J, Han W, Zhang L, Zhu Y, Xuan Y, Sun BB, Qiao L, Hermjakob H, Tang H, Gao H, Deng Y, Zhong Q, Chang C, Bandeira N, Li M, E W, Sun S, Yang Y, Omenn GS, Zhang Y, Xu P, Fu Y, Liu X, Overall CM, Wang Y, Deutsch EW, Chen L, Cox J, Demichev V, He F, Huang J, Jin H, Liu C, Li N, Luan Z, Song J, Yu K, Wan W, Wang T, Zhang K, Zhang L, Bell PA, Mann M, Zhang B, Guo T
Zero-shot de novo peptide sequencing with open posttranslational modification discovery.
Mao Z, Peng C, Chen Y, Wu P, Zhang Q, Yu Y, Zhang R, Xin L, Shan B, Deng H, Li M
From Levin's Universal Search to Policy-Guided Tree Search.
Li M
Mass spectrometry-based de novo sequencing reveals non-canonical neoantigens with antitumor efficacy in hepatocellular carcinoma.
Xing X, Liu M, Ouyang J, Tang Y, Shan B, Tang R, Hu E, Li M, Liu X
Sequencing of Polyclonal Antibodies by Integrating Intact Mass, Middle-Down, and De Novo Bottom-Up Mass Spectrometry.
Xin L, Li W, Zhang S, Tran NH, Chen Z, Ma J, Peng C, Aihemaiti A, Hoffman K, Zhang X, Sun W, Li L, Wang Z, Li M, Shan B
Proteoform search from protein database with top-down mass spectra.
Li K, Shan B, Xin L, Li M, Wang L
Author Correction: π-HuB: the proteomic navigator of the human body.
He F, Aebersold R, Baker MS, Bian X, Bo X, Chan DW, Chang C, Chen L, Chen X, Chen YJ, Cheng H, Collins BC, Corrales F, Cox J, E W, Van Eyk JE, Fan J, Faridi P, Figeys D, Gao GF, Gao W, Gao ZH, Goda K, Goh WWB, Gu D, Guo C, Guo T, He Y, Heck AJR, Hermjakob H, Hunter T, Iyer NG, Jiang Y, Jimenez CR, Joshi L, Kelleher NL, Li M, Li Y, Lin Q, Liu CH, Liu F, Liu GH, Liu Y, Liu Z, Low TY, Lu B, Mann M, Meng A, Moritz RL, Nice E, Ning G, Omenn GS, Overall CM, Palmisano G, Peng Y, Pineau C, Poon TCW, Purcell AW, Qiao J, Reddel RR, Robinson PJ, Roncada P, Sander C, Sha J, Song E, Srivastava S, Sun A, Sze SK, Tang C, Tang L, Tian R, Vizcaíno JA, Wang C, Wang C, Wang X, Wang X, Wang Y, Weiss T, Wilhelm M, Winkler R, Wollscheid B, Wong L, Xie L, Xie W, Xu T, Xu T, Yan L, Yang J, Yang X, Yates J, Yun T, Zhai Q, Zhang B, Zhang H, Zhang L, Zhang L, Zhang P, Zhang Y, Zheng YZ, Zhong Q, Zhu Y, π-HuB Consortium
π-HuB: the proteomic navigator of the human body.
He F, Aebersold R, Baker MS, Bian X, Bo X, Chan DW, Chang C, Chen L, Chen X, Chen YJ, Cheng H, Collins BC, Corrales F, Cox J, E W, Van Eyk JE, Fan J, Faridi P, Figeys D, Gao GF, Gao W, Gao ZH, Goda K, Goh WWB, Gu D, Guo C, Guo T, He Y, Heck AJR, Hermjakob H, Hunter T, Iyer NG, Jiang Y, Jimenez CR, Joshi L, Kelleher NL, Li M, Li Y, Lin Q, Liu CH, Liu F, Liu GH, Liu Y, Liu Z, Low TY, Lu B, Mann M, Meng A, Moritz RL, Nice E, Ning G, Omenn GS, Overall CM, Palmisano G, Peng Y, Pineau C, Poon TCW, Purcell AW, Qiao J, Reddel RR, Robinson PJ, Roncada P, Sander C, Sha J, Song E, Srivastava S, Sun A, Sze SK, Tang C, Tang L, Tian R, Vizcaíno JA, Wang C, Wang C, Wang X, Wang X, Wang Y, Weiss T, Wilhelm M, Winkler R, Wollscheid B, Wong L, Xie L, Xie W, Xu T, Xu T, Yan L, Yang J, Yang X, Yates J, Yun T, Zhai Q, Zhang B, Zhang H, Zhang L, Zhang L, Zhang P, Zhang Y, Zheng YZ, Zhong Q, Zhu Y, π-HuB Consortium
NovoBoard: A Comprehensive Framework for Evaluating the False Discovery Rate and Accuracy of De Novo Peptide Sequencing.
Tran NH, Qiao R, Mao Z, Pan S, Zhang Q, Li W, Xin L, Li M, Shan B
Author Correction: Glycopeptide database search and de novo sequencing with PEAKS GlycanFinder enable highly sensitive glycoproteomics.
Sun W, Zhang Q, Zhang X, Tran NH, Ziaur Rahman M, Chen Z, Peng C, Ma J, Li M, Xin L, Shan B
Advanced computational server required in protein sequencing
Principal investigators: Li, Ming
Keywords: advanced computational server; de novo peptide sequencing; data independent acquisition; deep learning; mass spectrometry
Kolmogorov complexity and algorithms for immunopeptidomics
Principal investigators: Li, Ming
Keywords: kolmogorov complexity; deep learning; neoantigen discovery; peptide sequencing; algorithms
Kolmogorov complexity and its applications
Principal investigators: Li, Ming
Bioinformatics
Principal investigators: Li, Ming
Bioinformatics
Principal investigators: Li, Ming
Bioinformatics
Principal investigators: Li, Ming
Keywords: Kolmogorov complexity information distance bioinformatics ; algorithms natural language processing algorithms neural ; networks deep learning
Bioinformatics software tools and Kolmogorov complexity
Principal investigators: Li, Ming
Computer server for bioinformatics research
Principal investigators: Ma, Bin
Canada Research Chair in Bioinformatics
Principal investigators: Li, Ming
Keywords: CRC
Canada Research Chair in Bioinformatics
Principal investigators: Li, Ming
Keywords: CRC
From CIHR, NSERC and SSHRC funding decisions: CIHR since 2008, NSERC since 1991 and SSHRC since 1998, including their latest published competition results.
Frequent collaborators
- Daniel Figeys and Ming Li: 2 shared papers
- Ming Li and Ali Ghodsi: 2 shared papers
- Ming Li and Bin Ma: 2 shared papers
- Ming Li and Henry Wolkowicz: 1 shared paper
- Ming Li and Achim Kempf: 1 shared paper
- Ming Li and Daniel Brown: 1 shared paper
- Ali Ghodsi and Henry Wolkowicz: 1 shared paper
- Daniel Brown and Bin Ma: 1 shared paper
- Computer Science
- Statistics and Actuarial Science
- Biochemistry, Microbiology and Immunology
- Applied Mathematics
- Combinatorics and Optimization
Co-authors at University of Waterloo, colored by department. Thicker lines mean more shared papers; select anyone to open their profile and their own map.
Ali Ghodsi
Statistics and Actuarial Science
2 shared papers, latest 2019
Bin Ma
Computer Science
2 shared papers, latest 2006
Daniel Figeys
Biochemistry, Microbiology and Immunology
2 shared papers, latest 2025
Achim Kempf
Applied Mathematics
1 shared papers, latest 2021
Daniel Brown
Computer Science
1 shared papers, latest 2006
Henry Wolkowicz
Combinatorics and Optimization
1 shared papers, latest 2013
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