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Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

Bioinformatics, 2010-04, Vol.26 (7), p.966-968

2010

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The Evolutionary Imprint of Domestication on Genome Variation and Function of the Filamentous Fungus Aspergillus oryzae

Current biology, 2012-08, Vol.22 (15), p.1403-1409

2012

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MetaNovo: An open-source pipeline for probabilistic peptide discovery in complex metaproteomic datasets

PLoS computational biology, 2023-06, Vol.19 (6), p.e1011163-e1011163

2023

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Employing ProteoWizard to Convert Raw Mass Spectrometry Data

Current Protocols in Bioinformatics, 2014-06, Vol.46 (1), p.13.24.1-13.24.9

2014

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Recognizing millions of consistently unidentified spectra across hundreds of shotgun proteomics datasets

Nature methods, 2016-08, Vol.13 (8), p.651-656

2016

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MyriMatch: Highly Accurate Tandem Mass Spectral Peptide Identification by Multivariate Hypergeometric Analysis

Journal of proteome research, 2007-02, Vol.6 (2), p.654-661

2007

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A Face in the Crowd: Recognizing Peptides Through Database Search

Molecular & cellular proteomics, 2011-11, Vol.10 (11), p.R111.009522-R111.009522, Article R111.009522

2011

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Proteomic Parsimony through Bipartite Graph Analysis Improves Accuracy and Transparency

Journal of proteome research, 2007-09, Vol.6 (9), p.3549-3557

2007

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Proteomics Standards Initiative: Fifteen Years of Progress and Future Work

Journal of proteome research, 2017-12, Vol.16 (12), p.4288-4298

2017

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SWATH-MS based proteomic profiling of pancreatic ductal adenocarcinoma tumours reveals the interplay between the extracellular matrix and related intracellular pathways

PloS one, 2020-10, Vol.15 (10), p.e0240453-e0240453

2020

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Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work

Journal of proteome research, 2023-02, Vol.22 (2), p.287-301

2023

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Comparative Proteomics Analysis between Maize and Sorghum Uncovers Important Proteins and Metabolic Pathways Mediating Drought Tolerance

Life (Basel, Switzerland), 2023-01, Vol.13 (1), p.170

2023

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Protein Identification Using Customized Protein Sequence Databases Derived from RNA-Seq Data

Journal of proteome research, 2012-02, Vol.11 (2), p.1009-1017

2012

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The Human Proteome Organization–Proteomics Standards Initiative Quality Control Working Group: Making Quality Control More Accessible for Biological Mass Spectrometry

Analytical chemistry (Washington), 2017-04, Vol.89 (8), p.4474-4479

2017

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enterocyte microvillus is a vesicle-generating organelle

The Journal of cell biology, 2009-06, Vol.185 (7), p.1285-1298

2009

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DTASelect and Contrast: Tools for Assembling and Comparing Protein Identifications from Shotgun Proteomics

Journal of proteome research, 2002-01, Vol.1 (1), p.21-26

2002

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Proteomic Analysis of Chinese Hamster Ovary Cells

Journal of proteome research, 2012-11, Vol.11 (11), p.5265-5276

2012

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Greazy: Open-Source Software for Automated Phospholipid Tandem Mass Spectrometry Identification

Analytical chemistry (Washington), 2016-06, Vol.88 (11), p.5733-5741

2016

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The SEQUEST Family Tree

Journal of the American Society for Mass Spectrometry, 2015-11, Vol.26 (11), p.1814-1819

Tabb, David L.

2015

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Advanced Proteogenomic Analysis Reveals Multiple Peptide Mutations and Complex Immunoglobulin Peptides in Colon Cancer

Journal of proteome research, 2015-09, Vol.14 (9), p.3555-3567

2015

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proBAMsuite, a Bioinformatics Framework for Genome-Based Representation and Analysis of Proteomics Data

Molecular & cellular proteomics, 2016-03, Vol.15 (3), p.1164-1175

2016

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A Label-Free Proteomic and Complementary Metabolomic Analysis of Leaves of the Resurrection Plant Xerophyta schlechteri during Dehydration

Life (Basel, Switzerland), 2021-11, Vol.11 (11), p.1242

2021

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Quality control in mass spectrometry‐based proteomics

Mass spectrometry reviews, 2018-09, Vol.37 (5), p.697-711

2018

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Quality assessment for clinical proteomics

Clinical biochemistry, 2013-04, Vol.46 (6), p.411-420

Tabb, David L.

2013

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Cleavage N-Terminal to Proline: Analysis of a Database of Peptide Tandem Mass Spectra

Analytical chemistry (Washington), 2003-05, Vol.75 (9), p.1963-1971

2003

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Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

The Evolutionary Imprint of Domestication on Genome Variation and Function of the Filamentous Fungus Aspergillus oryzae

MetaNovo: An open-source pipeline for probabilistic peptide discovery in complex metaproteomic datasets

Employing ProteoWizard to Convert Raw Mass Spectrometry Data

Recognizing millions of consistently unidentified spectra across hundreds of shotgun proteomics datasets

MyriMatch: Highly Accurate Tandem Mass Spectral Peptide Identification by Multivariate Hypergeometric Analysis

A Face in the Crowd: Recognizing Peptides Through Database Search

Proteomic Parsimony through Bipartite Graph Analysis Improves Accuracy and Transparency

Proteomics Standards Initiative: Fifteen Years of Progress and Future Work

SWATH-MS based proteomic profiling of pancreatic ductal adenocarcinoma tumours reveals the interplay between the extracellular matrix and related intracellular pathways

Proteomics Standards Initiative at Twenty Years: Current Activities and Future Work

Comparative Proteomics Analysis between Maize and Sorghum Uncovers Important Proteins and Metabolic Pathways Mediating Drought Tolerance

Protein Identification Using Customized Protein Sequence Databases Derived from RNA-Seq Data

The Human Proteome Organization–Proteomics Standards Initiative Quality Control Working Group: Making Quality Control More Accessible for Biological Mass Spectrometry

enterocyte microvillus is a vesicle-generating organelle

DTASelect and Contrast: Tools for Assembling and Comparing Protein Identifications from Shotgun Proteomics

Proteomic Analysis of Chinese Hamster Ovary Cells

Greazy: Open-Source Software for Automated Phospholipid Tandem Mass Spectrometry Identification

The SEQUEST Family Tree

Advanced Proteogenomic Analysis Reveals Multiple Peptide Mutations and Complex Immunoglobulin Peptides in Colon Cancer

proBAMsuite, a Bioinformatics Framework for Genome-Based Representation and Analysis of Proteomics Data

A Label-Free Proteomic and Complementary Metabolomic Analysis of Leaves of the Resurrection Plant Xerophyta schlechteri during Dehydration

Quality control in mass spectrometry‐based proteomics

Quality assessment for clinical proteomics

Cleavage N-Terminal to Proline: Analysis of a Database of Peptide Tandem Mass Spectra

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