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Nucleic Acids Res. 2018 Oct 8. doi: 10.1093/nar/gky899. [Epub ahead of print]

The jPOST environment: an integrated proteomics data repository and database.

Author information

1
Database Center for Life Science, Joint Support-Center for Data Science Research, Research Organization of Information and Systems, Kashiwa 277-0871, Japan.
2
Niigata University Graduate School of Medical and Dental Sciences, Niigata 951-8510, Japan.
3
Medical Institute of Bioregulation, Kyushu University, Fukuoka 812-8582, Japan.
4
Graduate School of Medical Sciences, Faculty of Life Sciences, Kumamoto University, Kumamoto 860-8556, Japan.
5
Kumamoto University Hospital, Kumamoto 860-8556, Japan.
6
Graduate School of Pharmaceutical Sciences, Kyoto University, Kyoto 606-8501, Japan.
7
Center for iPS Cell Research and Application, Kyoto University, Kyoto 606-8507, Japan.
8
Trans-IT, Kaminokawa 329-0607, Japan.

Abstract

Rapid progress is being made in mass spectrometry (MS)-based proteomics, yielding an increasing number of larger datasets with higher quality and higher throughput. To integrate proteomics datasets generated from various projects and institutions, we launched a project named jPOST (Japan ProteOme STandard Repository/Database, https://jpostdb.org/) in 2015. Its proteomics data repository, jPOSTrepo, began operations in 2016 and has accepted more than 10 TB of MS-based proteomics datasets in the past two years. In addition, we have developed a new proteomics database named jPOSTdb in which the published raw datasets in jPOSTrepo are reanalyzed using standardized protocol. jPOSTdb provides viewers showing the frequency of detected post-translational modifications, the co-occurrence of phosphorylation sites on a peptide and peptide sharing among proteoforms. jPOSTdb also provides basic statistical analysis tools to compare proteomics datasets.

PMID:
30295851
DOI:
10.1093/nar/gky899

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