PeptideAtlas statistics

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Citations per year

Number of citations per year for the bioinformatics software tool PeptideAtlas

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PeptideAtlas specifications


Unique identifier OMICS_02454
Name PeptideAtlas
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes


  • ProteoMapper


  • person_outline Eric W. Deutsch

Publications for PeptideAtlas


The PeptideAtlas project.

2006 Nucleic Acids Res
PMCID: 1347403
PMID: 16381952
DOI: 10.1093/nar/gkj040

PeptideAtlas citations


A Golden Age for Working with Public Proteomics Data

Trends Biochem Sci
PMCID: 5414595
PMID: 28118949
DOI: 10.1016/j.tibs.2017.01.001

[…] in unified submission and data dissemination practices within the ProteomeXchange (PX) Consortium ( At present, the PX members are PRIDE, PeptideAtlas (including the PASSEL resource for targeted proteomics data ), MassIVE, and jPOST.Most of the data sets publicly available correspond to human and the main model organisms. However, non-model organisms are also incr […]


The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition

Nucleic Acids Res
PMCID: 5210636
PMID: 27924013
DOI: 10.1093/nar/gkw936

[…] bmission for tandem MS experiments (the most popular experimental approach in the proteomics field), while PeptideAtlas provided a repository for SRM (Selected Reaction Monitoring) experiments called PASSEL (PeptideAtlas SRM Experiment Library) (). A common data access portal called ProteomeCentral was also developed (, providing the ability to search for […]


The Size of the Human Proteome: The Width and Depth

Int J Anal Chem
PMCID: 4889822
PMID: 27298622
DOI: 10.1155/2016/7436849

[…] high-, medium-, and low-copied protein species can be evaluated by sampling master proteins encoded by a single chromosome. As an example of a chromosome-centric proteomic map, we uploaded data from PASSEL [] (PASSEL IDs: PASS00278, PASS00276, PASS00092, and PASS00742) obtained for master proteins encoded by chromosome 18 [, ]. These proteins were measured in three types of biomaterial, including […]


Exploring the potential of public proteomics data

PMCID: 4738454
PMID: 26449181
DOI: 10.1002/pmic.201500295

[…] to store the generated data. Several such generic repositories are now available, for example PRIDE , GPMDB , PeptideAtlas , and MassIVE ( for shotgun results; and PASSEL , SRMAtlas (, and Panorama for targeted proteomics quantification data. More specific databases have also been established, related to: diseases, for example TBDB for t […]


Signatures of Evolutionary Adaptation in Quantitative Trait Loci Influencing Trace Element Homeostasis in Liver

Mol Biol Evol
PMCID: 4760079
PMID: 26582562
DOI: 10.1093/molbev/msv267

[…] ention time window of 5 min. Around 450 transitions were packed per method with a maximum total cycle time of 2 s, to ensure dwell times over 10 ms per transition. Raw data have been deposited in the PASSEL repository with the data set identifier PASS00678. Relative concentrations for the total set of 47 proteins successfully quantified are presented in supplementary table S5, Supplementary Materi […]


Making proteomics data accessible and reusable: Current state of proteomics databases and repositories

PMCID: 4409848
PMID: 25158685
DOI: 10.1002/pmic.201400302

[…] PASSEL uses a web interface for the data submission process ( and is now supporting the following data types ( (i) study metadat […]

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PeptideAtlas institution(s)
Institute for Systems Biology, Seattle, WA, USA
PeptideAtlas funding source(s)
Supported by the American Recovery and Reinvestment Act (ARRA) through grant number RC2 HG005805 from the National Institutes of Health NHGRI, the NIGMS (2P50 GM076547 and R01 GM087221), the U.S. National Science Foundation MRI (grant no. 0923536), and the Bill and Melinda Gates Foundation, Global Health Grant Number 0PP1039684.

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