Ngoc Hieu Tran

15 papers in the catalog · Canada

Ngoc Hieu Tran: 15 papers in the catalog · Canada · Bioinformatics Solutions (Canada), Bioinformatics Solutions Inc. · Works on ALPS, Deep-learning protein identification primer, DeepNovo

Affiliations

Bioinformatics Solutions (Canada)
Bioinformatics Solutions Inc.
University of Waterloo · David R. Cheriton School of Computer Science

Elsewhere

ORCID 0000-0001-5186-8852 · OpenAlex

Papers

Sequencing of Polyclonal Antibodies by Integrating Intact Mass, Middle–Down, and De Novo Bottom–Up Mass Spectrometry (2025, Molecular & Cellular Proteomics)
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)
Discovering and Validating Neoantigens by Mass Spectrometry-based Immunopeptidomics and Deep Learning (2022, bioRxiv)
A streamlined platform for analyzing tera-scale DDA and DIA mass spectrometry data enables highly sensitive immunopeptidomics (2022, 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, Proceedings of the National Academy of Sciences)
Complete De Novo Assembly of Monoclonal Antibody Sequences (2016, Scientific Reports)

Methods and tools

ALPS, Deep-learning protein identification primer, DeepNovo, DeepNovo Peptidome, DeepNovo V2, DeepNovo-DIA, DeepNovoAA, GlycanFinder, NovoBoard, PEAKS, PointNovo, PolySeq.AI

Co-authors (40)

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.

Baozhen Shan strength 2.23, 15 shared
Lei Xin strength 2.23, 15 shared
Ming Li strength 2.23, 15 shared
Rui Qiao strength 1.36, 10 shared
Xin Chen (Waterloo) strength 0.79, 5 shared
Ali Ghodsi strength 0.49, 3 shared
Wenting Li strength 0.44, 5 shared
Xianglilan Zhang strength 0.38, 2 shared
Qing Zhang strength 0.37, 4 shared
Shengying Pan strength 0.35, 3 shared
M. Ziaur Rahman strength 0.30, 2 shared
Chao Peng strength 0.29, 4 shared
Zachariah Levine strength 0.25, 1 shared
Zeping Mao strength 0.25, 2 shared
Lin He strength 0.20, 1 shared
Jun Ma strength 0.17, 2 shared
Weiping Sun strength 0.17, 2 shared
Xiyue Zhang strength 0.17, 2 shared
Zheng Chen strength 0.17, 2 shared
Chuyi Liu strength 0.12, 1 shared
Chungong Yu strength 0.12, 2 shared
Dongbo Bu strength 0.12, 2 shared
Haicang Zhang strength 0.12, 2 shared
Haiming Qin strength 0.12, 2 shared
Haofei Miao strength 0.12, 2 shared
Jingxiang Lang strength 0.12, 2 shared
Ping Wu strength 0.12, 2 shared
Qingyang Lei strength 0.12, 2 shared
Xiaolong Liu strength 0.12, 2 shared
Yi Zhang strength 0.12, 2 shared
Brenton Morse strength 0.10, 1 shared
Haibo Bian strength 0.10, 1 shared
Qianqiu Zhang strength 0.10, 1 shared
Sahar Rabinoviz strength 0.10, 1 shared
Xianliang He strength 0.10, 1 shared
Ailee Aihemaiti strength 0.07, 1 shared
Kyle Hoffman strength 0.07, 1 shared
Linting Li strength 0.07, 1 shared
Shuyang Zhang strength 0.07, 1 shared
Zihao Wang strength 0.07, 1 shared

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