9	datasets
79	experiments
3,473	MS runs
8,581,783	PSMs
173,245	distinct peptides
10,502	canonical proteins

About

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

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

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All detected canonical proteins

Publications

Comparative Functional Analysis of the Caenorhabditis elegans and Drosophila melanogaster Proteomes
Schrimpf SP, Weiss M, Reiter L, Ahrens CH, Jovanovic M, et al. (2009)
PLOS Biology 7(3): e1000048
DOI: 10.1371/journal.pbio.1000048

Download

Below are individual C. elegans 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.

C. elegans 2016-06 PSM FDR = 0.00001Latest Build

Biosequence Set in FASTA format [51MB]
Peptide CDS and chromosomal coordinates [52MB]
Peptide CDS coordinates [34MB]
Peptide sequences in FASTA format [4MB]

C. elegans 2013-09 PSM FDR = 0.00035

Biosequence Set in FASTA format [43MB]
Database tables exported as an XML file [49MB]
Database tables exported as mysql dump file [27MB]
Peptide CDS and chromosomal coordinates [25MB]
Peptide CDS coordinates [16MB]
Peptide sequences in FASTA format [3MB]

C. elegans 2011-08 Ens62 PSM FDR = 0.0025

Biosequence Set in FASTA format [32MB]
Database tables exported as an XML file [34MB]
Database tables exported as mysql dump file [19MB]
Peptide CDS and chromosomal coordinates [13MB]
Peptide CDS coordinates [8MB]
Peptide sequences in FASTA format [2MB]

C. elegans 2009-03 P >= 0.9

Biosequence Set in FASTA format [28MB]
Database tables exported as an XML file [39MB]
Database tables exported as mysql dump file [24MB]
Peptide CDS and chromosomal coordinates [15MB]
Peptide CDS coordinates [8MB]
Peptide sequences in FASTA format [2MB]

Help

Complete description of each of the available download formats