2	datasets
320	experiments
3,840	MS runs
4,416,808	PSMs
87,799	distinct peptides
7,139	canonical proteins

About

The Pig PeptideAtlas provides a compendium of results from uniformly reprocessed mass spectrometry proteomics datasets.

Available datasets of Pig samples were reprocessed from the raw files using the Trans-Proteomic Pipeline suite of tools.

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All detected canonical proteins

Publications

The Pig PeptideAtlas: A resource for systems biology in animal production and biomedicine
Hesselager MO, Codrea MC, Sun Z, Deutsch EW, Bennike TB, Stensballe A, Bundgaard L, Moritz RL, Bendixen E.
Proteomics. 2016 Feb;16(4):634-44
DOI: 10.1002/pmic.201500195. PMID: 26699206; PMCID: PMC4786621.

Download

Below are individual Pig PeptideAtlas builds available for download in various flat file formats. Note that not all files contain all information from the build. A build subtitled "PSM FDR=0.002" denotes a PSM FDR threshold of 0.002 (0.2%) is applied to every sample in the build.

Pig 2014-11 PSM FDR = 0.0012Latest Build

Biosequence Set in FASTA format [56MB]
Peptide CDS and chromosomal coordinates [39MB]
Peptide CDS coordinates [22MB]
Peptide sequences in FASTA format [2MB]

Pig 2011-08 Ens62 PSM FDR = 0.0002

Biosequence Set in FASTA format [33MB]
Database tables exported as an XML file [12MB]
Database tables exported as mysql dump file [6MB]
Peptide CDS and chromosomal coordinates [3MB]
Peptide CDS coordinates [1MB]
Peptide sequences in FASTA format [387KB]

Help

Complete description of each of the available download formats