Baozhen Shan

15 papers in the catalog · Canada

Baozhen Shan: 15 papers in the catalog · Canada · Bioinformatics Solutions Inc. · Works on DIANovo, Deep-learning protein identification primer, DeepNovo

Affiliations

Bioinformatics Solutions Inc.

Elsewhere

ORCID 0000-0002-8757-5493 · OpenAlex

Papers

Zero-shot de novo peptide sequencing with open posttranslational modification discovery (2026, Nature Biotechnology)
A living proteomics benchmark for comprehensive evaluation of deep learning-based de novo peptide sequencing tools (2026, Nature Methods (Registered Report))
Disentangling the Complex Multiplexed DIA Spectra in De Novo Peptide Sequencing (2024, arXiv)
NovoBoard: A Comprehensive Framework for Evaluating the False Discovery Rate and Accuracy of De Novo Peptide Sequencing (2024, Molecular & Cellular Proteomics)
NovoBoard: a comprehensive framework for evaluating the false discovery rate and accuracy of de novo peptide sequencing (2024, bioRxiv)
A complete mass spectrometry-based immunopeptidomics pipeline for neoantigen identification and validation (2023, Research Square)
Glycopeptide database search and de novo sequencing with PEAKS GlycanFinder enable highly sensitive glycoproteomics (2023, Nature Communications)
Computationally instrument-resolution-independent de novo peptide sequencing for high-resolution devices (2021, Nature Machine Intelligence)
Personalized deep learning of individual immunopeptidomes to identify neoantigens for cancer vaccines (2020, Nature Machine Intelligence)
Personalized deep learning of individual immunopeptidomes to identify neoantigens for cancer vaccines (2019, bioRxiv)
DeepNovoV2: Better de novo peptide sequencing with deep learning (2019, arXiv)
Deep learning enables de novo peptide sequencing from data-independent-acquisition mass spectrometry (2018, Nature Methods)
Protein identification with deep learning: from abc to xyz (2017, arXiv)
De novo peptide sequencing by deep learning (2017, PNAS)
PEAKS DB: De Novo Sequencing Assisted Database Search for Sensitive and Accurate Peptide Identification (2012, Molecular & Cellular Proteomics)

Methods and tools

DIANovo, Deep-learning protein identification primer, DeepNovo, DeepNovo Peptidome, DeepNovo V2, DeepNovo-DIA, DeepNovoAA, GlycanFinder, Living proteomics benchmark, NovoBoard, PEAKS DB, PointNovo, RNovA

Co-authors (93)

Ranked by Newman fractional collaboration strength, so a pair on a two-author paper counts for more than a pair on a 50-author consortium paper.

Lei Xin strength 2.17, 15 shared
Ming Li strength 2.06, 14 shared
Ngoc Hieu Tran strength 1.80, 11 shared
Rui Qiao strength 1.20, 8 shared
Xin Chen strength 0.69, 4 shared
Ali Ghodsi strength 0.63, 4 shared
Zeping Mao strength 0.49, 4 shared
Xianglilan Zhang strength 0.38, 2 shared
Qing Zhang strength 0.31, 3 shared
Wenting Li strength 0.31, 3 shared
Chao Peng strength 0.26, 3 shared
Shengying Pan strength 0.25, 2 shared
Zachariah Levine strength 0.25, 1 shared
Ruixue Zhang strength 0.24, 2 shared
Qianqiu Zhang strength 0.20, 2 shared
Ping Wu strength 0.16, 2 shared
Jiazhen Chen strength 0.14, 1 shared
Zheng Ma strength 0.14, 1 shared
Bin Ma strength 0.13, 2 shared
Chuyi Liu strength 0.12, 1 shared
Denis Yuen strength 0.11, 1 shared
Gilles Lajoie strength 0.11, 1 shared
Jing Zhang strength 0.11, 1 shared
Mingjie Xie strength 0.11, 1 shared
Weiming Zhang strength 0.11, 1 shared
Weiwu Chen strength 0.11, 1 shared
Zefeng Zhang strength 0.11, 1 shared
Haiteng Deng strength 0.10, 1 shared
Jun Ma strength 0.10, 1 shared
M. Ziaur Rahman strength 0.10, 1 shared
Weiping Sun strength 0.10, 1 shared
Xiyue Zhang strength 0.10, 1 shared
Yonghan Yu strength 0.10, 1 shared
Yuling Chen strength 0.10, 1 shared
Zheng Chen strength 0.10, 1 shared
Chungong Yu strength 0.06, 1 shared
Dongbo Bu strength 0.06, 1 shared
Haicang Zhang strength 0.06, 1 shared
Haiming Qin strength 0.06, 1 shared
Haofei Miao strength 0.06, 1 shared

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