Computational Methods for Protein Identification from Mass Spectrometry Data

Leo McHugh; Jonathan W Arthur

doi:10.1371/journal.pcbi.0040012

Computational Methods for Protein Identification from Mass Spectrometry Data

PLoS Computational Biology ◽

10.1371/journal.pcbi.0040012 ◽

2008 ◽

Vol 4 (2) ◽

pp. e12 ◽

Cited By ~ 66

Author(s):

Leo McHugh ◽

Jonathan W Arthur

Keyword(s):

Mass Spectrometry ◽

Computational Methods ◽

Protein Identification ◽

Mass Spectrometry Data

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Protein Identification by Database Searching of Mass Spectrometry Data in the Teaching of Proteomics

Journal of Chemical Education ◽

10.1021/acs.jchemed.0c00853 ◽

2021 ◽

Author(s):

Vinícius Marquioni ◽

Francis Morais Franco Nunes ◽

Maria Teresa Marques Novo-Mansur

Keyword(s):

Mass Spectrometry ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Database Searching

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Protein Identification with Tandem Mass Spectrometry Data

Introduction to Proteomics ◽

10.1385/1-59259-130-2:099 ◽

2003 ◽

pp. 099-108

Author(s):

Daniel C. Liebler

Keyword(s):

Mass Spectrometry ◽

Tandem Mass Spectrometry ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Tandem Mass ◽

Tandem Mass Spectrometry Data

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Cleansing of Mass Spectrometry Data for Protein Identification and Quantification

Biological Knowledge Discovery Handbook ◽

10.1002/9781118617151.ch03 ◽

2013 ◽

pp. 59-76

Author(s):

Penghao Wang ◽

Albert Y. Zomaya

Keyword(s):

Mass Spectrometry ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Identification And Quantification

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Generalized Method for Probability-based Peptide and Protein Identification from Tandem Mass Spectrometry Data and Sequence Database Searching

Molecular & Cellular Proteomics ◽

10.1074/mcp.m800122-mcp200 ◽

2008 ◽

Vol 7 (9) ◽

pp. 1748-1754 ◽

Cited By ~ 30

Author(s):

Antonio Ramos-Fernández ◽

Alberto Paradela ◽

Rosana Navajas ◽

Juan Pablo Albar

Keyword(s):

Mass Spectrometry ◽

Tandem Mass Spectrometry ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Database Searching ◽

Tandem Mass ◽

Sequence Database ◽

Tandem Mass Spectrometry Data

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Choosing an Optimal Database for Protein Identification from Tandem Mass Spectrometry Data

Methods in Molecular Biology - Proteome Bioinformatics ◽

10.1007/978-1-4939-6740-7_3 ◽

2016 ◽

pp. 17-29 ◽

Cited By ~ 7

Author(s):

Dhirendra Kumar ◽

Amit Kumar Yadav ◽

Debasis Dash

Keyword(s):

Mass Spectrometry ◽

Tandem Mass Spectrometry ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Tandem Mass ◽

Tandem Mass Spectrometry Data

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Faculty Opinions recommendation of Evaluation of algorithms for protein identification from sequence databases using mass spectrometry data.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1018756.202401 ◽

2004 ◽

Author(s):

John Yates

Keyword(s):

Mass Spectrometry ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Sequence Databases

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A Protein Identification Algorithm Optimization for Mass Spectrometry Data using Deep Learning

2020 3rd International Conference on Advanced Electronic Materials, Computers and Software Engineering (AEMCSE) ◽

10.1109/aemcse50948.2020.00110 ◽

2020 ◽

Author(s):

Rui Xu ◽

Mingze Bai ◽

Kunxian Shu ◽

Yilong Liang ◽

Yunping Zhu ◽

...

Keyword(s):

Mass Spectrometry ◽

Deep Learning ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Identification Algorithm ◽

Algorithm Optimization

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Probability-based protein identification by searching sequence databases using mass spectrometry data

Electrophoresis ◽

10.1002/(sici)1522-2683(19991201)20:18<3551::aid-elps3551>3.0.co;2-2 ◽

1999 ◽

Vol 20 (18) ◽

pp. 3551-3567 ◽

Cited By ~ 4913

Author(s):

David N. Perkins ◽

Darryl J. C. Pappin ◽

David M. Creasy ◽

John S. Cottrell

Keyword(s):

Mass Spectrometry ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Sequence Databases

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Popitam: Towards new heuristic strategies to improve protein identification from tandem mass spectrometry data

PROTEOMICS ◽

10.1002/pmic.200300402 ◽

2003 ◽

Vol 3 (6) ◽

pp. 870-878 ◽

Cited By ~ 64

Author(s):

Patricia Hernandez ◽

Robin Gras ◽

Julien Frey ◽

Ron D. Appel

Keyword(s):

Mass Spectrometry ◽

Tandem Mass Spectrometry ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Tandem Mass ◽

Heuristic Strategies ◽

Tandem Mass Spectrometry Data

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Improving protein identification from tandem mass spectrometry data by one-step methods and integrating data from other platforms

Briefings in Bioinformatics ◽

10.1093/bib/bbv043 ◽

2015 ◽

Vol 17 (2) ◽

pp. 262-269 ◽

Cited By ~ 1

Author(s):

Sinjini Sikdar ◽

Ryan Gill ◽

Susmita Datta

Keyword(s):

Mass Spectrometry ◽

Tandem Mass Spectrometry ◽

Protein Identification ◽

Mass Spectrometry Data ◽

Tandem Mass ◽

One Step ◽

Tandem Mass Spectrometry Data

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