PeptideAtlas

[…] in unified submission and data dissemination practices within the ProteomeXchange (PX) Consortium (http://www.proteomexchange.org/). 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 […]

[…] 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 (http://proteomecentral.proteomexchange.org), providing the ability to search for […]

[…] 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 […]

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

[…] 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 […]

[…] PASSEL uses a web interface for the data submission process (http://www.peptideatlas.org/submit) and is now supporting the following data types (http://www.peptideatlas.org/upload/): (i) study metadat […]