DeepRescore: Leveraging Deep Learning to Improve Peptide Identification in Immunopeptidomics-Reference-Cited by-同舟云学术

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DeepRescore: Leveraging Deep Learning to Improve Peptide Identification in Immunopeptidomics

Published:2020-09-27 Issue:21-22 Volume:20 Page:1900334
ISSN:1615-9853
Container-title:PROTEOMICS
language:en
Short-container-title:Proteomics

Author:

Li Kai¹²^ORCID,Jain Antrix³^ORCID,Malovannaya Anna³⁴^ORCID,Wen Bo¹²^ORCID,Zhang Bing¹²^ORCID

Affiliation:

1. Lester and Sue Smith Breast Center Baylor College of Medicine Houston TX 77030 USA

2. Department of Molecular and Human Genetics Baylor College of Medicine Houston TX 77030 USA

3. Mass Spectrometry Proteomics Core Baylor College of Medicine Houston TX 77030 USA

4. Verna and Marrs McLean Department of Biochemistry and Molecular Biology Baylor College of Medicine Houston TX 77030 USA

Funder

National Cancer Institute

Robert and Janice McNair Foundation

Cancer Prevention and Research Institute of Texas

Publisher

Wiley

Subject

Molecular Biology,Biochemistry

Link

https://onlinelibrary.wiley.com/doi/pdf/10.1002/pmic.201900334

Reference40 articles.

1. Mass spectrometry-based antigen discovery for cancer immunotherapy

2. The Human Immunopeptidome Project: A Roadmap to Predict and Treat Immune Diseases

3. Comet: An open-source MS/MS sequence database search tool

4. MS-GF+ makes progress towards a universal database search tool for proteomics

5. TANDEM: matching proteins with tandem mass spectra

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1. Koina: Democratizing machine learning for proteomics research;2024-06-03

2. TIMS²Rescore: A DDA-PASEF optimized data-driven rescoring pipeline based on MS²Rescore;2024-06-02

3. MS²Rescore 3.0 Is a Modular, Flexible, and User-Friendly Platform to Boost Peptide Identifications, as Showcased with MS Amanda 3.0;Journal of Proteome Research;2024-03-16

4. Thunder-DDA-PASEF enables high-coverage immunopeptidomics and is boosted by MS2Rescore with MS2PIP timsTOF fragmentation prediction model;Nature Communications;2024-03-13

5. MARS an improved de novo peptide candidate selection method for non-canonical antigen target discovery in cancer;Nature Communications;2024-01-22

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