PeptideAtlas - sporedata/researchdesigneR GitHub Wiki

General description

PeptideAtlas is a publicly available, multi-organism collection of peptides identified through extensive tandem mass spectrometry proteomics experiments. It aggregates mass spectrometer output files from various organisms, including humans, mice, and yeast. These files are analyzed using cutting-edge search engines and protein sequences. The analysis results, including sequence and spectral library searches, are processed using the Trans Proteomic Pipeline. This ensures a uniformly high probability of correct identification for all entries and maintains a high-quality database standard, complete with false discovery rates assessed at the overall atlas level.

Related publications

• Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome
• Halobacterium salinarum NRC-1 PeptideAtlas: Toward Strategies for Targeted Proteomics and Improved Proteome Coverage
• PeptideAtlas: a resource for target selection for emerging targeted proteomics workflows
• A complete mass-spectrometric map of the yeast proteome applied to quantitative trait analysis
• High-throughput generation of selected reaction-monitoring assays for proteins and proteomes
• A High-Confidence Human Plasma Proteome Reference Set with Estimated Concentrations in PeptideAtlas
• Advances and Utility of the Human Plasma Proteome
• Using the Human Plasma PeptideAtlas to study human plasma proteins
• The State of the Human Proteome in 2012 as Viewed through PeptideAtlas
• The 2022 Report on the Human Proteome from the HUPO Human Proteome Project
• Integration of Peptide Sequences Obtained by High-Throughput Mass Spectrometry with the Human Genome
• The Arabidopsis PeptideAtlas: Harnessing worldwide proteomics data to create a comprehensive community proteomics resource
• State of the Human Proteome in 2014/2015 As Viewed through PeptideAtlas: Enhancing Accuracy and Coverage through the AtlasProphet
• The Human Plasma Proteome Draft of 2017: Building on the Human Plasma PeptideAtlas from Mass Spectrometry and Complementary Assays
• State of the human proteome in 2013 as viewed through PeptideAtlas: comparing the kidney, urine, and plasma proteomes for the biology- and disease-driven Human Proteome Project

Data access

More information about PeptideAtlas can be found at https://peptideatlas.org/

To access PeptideAtlas data, visit http://www.peptideatlas.org/repository/