26	datasets
117	experiments
5,348	MS runs
10,438,846	PSMs
224,625	distinct peptides
11,293	canonical proteins

About

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

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

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Below are individual Mouse 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.

Mouse 2016-01 PSM FDR = 0.00025Latest Build

Biosequence Set in FASTA format [136MB]
Peptide CDS and chromosomal coordinates [165MB]
Peptide CDS coordinates [85MB]
Peptide sequences in FASTA format [6MB]

Mouse 2014-12 PSM FDR = 0.00025

Biosequence Set in FASTA format [176MB]
Database tables exported as an XML file [93MB]
Database tables exported as mysql dump file [53MB]
Peptide CDS and chromosomal coordinates [90MB]
Peptide CDS coordinates [46MB]
Peptide sequences in FASTA format [3MB]

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Complete description of each of the available download formats