PeptideAtlas
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(Farrah, et al.)

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Related:
  SRMAtlas
  PASSEL
  Phosphopep
  Unipep
  mspecLINE

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Glossary/Terms:
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Search PeptideAtlas:     
Expanded Search

PeptideAtlas is a multi-organism, publicly accessible compendium of peptides identified in a large set of tandem mass spectrometry proteomics experiments. More...


PeptideAtlas
Chromosome
Explorer
(Human only)





SRMAtlas
interface for
selection of
best available
SRM transitions


PeptideAtlas
Raw Data
Repository



PeptideAtlas SRM
Experiment Library
(PASSEL)




PeptideAtlas and the
Chromosome-Centric
Human Proteome Project

your raw data to PeptideAtlas

PeptideAtlas News

2014-07-31 New Human build is now available to search.
2014-04-25 First Zebrafish build is now available to search.
2014-01-23 The paper, The Equine PeptideAtlas - a resource for developing proteomics-based veterinary research, appears online.
2013-12-06 First Rat build is now available to search.
2013-09-25 The HoneyBee build has been updated and is now available to search.
2013-09-19 New human urine and human kidney builds are now publicly available.
2013-09-10 The manuscript, The Equine PeptideAtlas - a resource for developing proteomics-based veterinary diagnostics, has been submitted. The related build, Horse 2013-04 are now publicly available.
2013-08-20 The first Human Liver build is publicly available now.
2013-08-15 We researched all human datasets using new search database, which includes CompleteProteome and varsplic proteins. A list of new human builds based on new search results have been made available, such as Human 2013-08 and Human Others 2013-08.
2013-06-13 First two C. albicans builds, C. albicans 2011-12 and C. albicans 2012-01 PTM are now publicly available. A paper about both builds has been submitted to the special issue on microbial proteomics of the Journal of Proteomics.
2013-05-01 The paper, N-Glycoprotein SRMAtlas: A RESOURCE OF MASS SPECTROMETRIC ASSAYS FOR N-GLYCOSITES ENABLING CONSISTENT AND MULTIPLEXED PROTEIN QUANTIFICATION FOR CLINICAL APPLICATIONS., appears in Mol Cell Proteomics (10.1074/mcp.O112.026617). Two related builds Human Glyco Synthetic Peptides 2012-07 and Mouse Glyco Synthetic Peptides 2012-07 are now publicly available.
2013-04-25 The manuscript, The Mtb Proteome Library: Quantitative Assays for the Complete Proteome of Mycobacterium tuberculosis, got officially accepted by Cell Host & Microbe. Two related builds M. tuberculosis 2013-05 and M. tuberculosis Light DirtyPeptide 2013-05 are now publicly available.
2013-04-10: S. pombe 2012-08 PeptideAtlas build are now available to search. The paper Extensive Mass Spectrometry-Based Analysis of the Fission Yeast Proteome: The S. pombe PeptideAtlas. , appears in Mol Cell Proteomics (mcp.M112.023754).
2013-04-04: New Human and Yeast builds are now publicly available. The human build includes support for sequence variations from UniProt.
2013-01-16: P. falciparum and P. yoelii PeptideAtlas are now available. The paper Total and Putative Surface Proteomics of Malaria Parasite Salivary Gland Sporozoites, appears in Mol Cell Proteomics (mcp.M112.024505).
2012-11-21: New Human PeptideAtlas is now available to search
2012-07-31: New Human PeptideAtlas is now available to search
2012-06-22: The latest versions of spectrum libraries from NIST are now available at the PeptideAtlas Spectrum Library Central Page.
2012-04-27: First Cow PeptideAtlas is now available to search. All data including any formats can be download from our repository site.
2012-03-28: New Human PeptideAtlas is now available to search. 5 cell line data sets from recent publications, Nagaraj et al. 2011, Beck et al. 2011, Munoz et al. 2011, Sharma et al. 2011, and Geiger et al. 2012 have been added to this build. For the older data sets, only the experiments searched with decoy database are included in order to get a good estimate of decoy FDR. Those not searched with decoy database will be researched, and add to build later.
2011-09-27: The PeptideAtlas SRM Experiment Library ( PASSEL) is now available for general use. Thus far it contains only a few public experiments, but several datasets are under review and will become public upon acceptance. We encourage submissions of SRM experiment datasets.
2011-09-13: Human Brain PeptideAtlas is now available to search. Raw data is avaiable to download from PeptideAtlas repository. The build is available to download.
2011-06-16: A set of 1929 human plasma proteins at FDR 1% in PeptideAtlas was published June 1. This is by far the largest plasma set at this confidence level, combining 91 contributed experiments.
2011-05-24: PeptideAtlas Chromosome Explorer (PACE) provides a high-level visualization of the Human PeptideAtlas Build, displayed by chromosome.
2011-05-14: First HoneyBee PeptideAtlas is now available to search. The paper is submitted to the BioMed Central and under review. Raw data is avaiable to download from PeptideAtlas repository. The PeptideAtlas build for Honeybee is available to download.
2010-08: Graphical depiction of chromosome coverage for human builds available. Use Browse Proteins and specify a single chromosome.
2010-07: The latest versions of Human, Mouse, Drosophila, and Celegans builds are now available at the PeptideAtlas. Version 57 of the EnsEMBL is used for the peptides mapping in all of the new builds.
2010-06: The latest versions of spectrum libraries from NIST are now available at the PeptideAtlas Spectrum Library Central Page.
2010-03: Members of the PeptideAtlas team have recently published mspecLINE, a web application that allows researchers to explore relationships between human diseases and the observed proteome.
2010-02: For the first time, a Mouse PeptideAtlas build, based on 64 samples from a variety of tissues and subcellular compartments, is available to search.

Related Resources



 

PeptideAtlas is a product of the Seattle Proteome Center (SPC), a highly interactive, multi-disciplinary group aiming to enhance and develop innovative proteomic technologies and software tools and apply them to biological questions relevant to heart, lung, blood, and sleep.

 

This project has been funded in part with Federal funds from the National Heart, Lung, and Blood Institute, National Institutes of Health, under contract No. N01-HV-28179.

 

PeptideAtlas is a module within SBEAMS, the Systems Biology Experiment Management System.

 

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