jPOST database

2024/06/12

Web Site: https://globe.jpostdb.org/

jPOSTdb is a database containing re-analysis results with unified criteria for proteome data from jPOST repository.

README Content

  1. Database Component
  2. Data Description
  3. License
  4. Update History
  5. Literature
  6. Contact address

1. Database Component

  1. README
  2. Identified protein data
  3. PSM peptide data
  4. PSM peptide modification
  5. jPOST database RDF
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2. Data Description

2.1 README

Data name README
Description of data contents HTML file to describe "jPOST database" data.
File README_e.html (English)
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2.2 Identified protein data

Data name Identified protein data
Description of data contents

This is the re-analysis summary results of proteome data in jPOST repository. They are idetified with UniProt protein data.

File jpostdb_protein.zip (11.8MB)

Data items are the following:
Data itemDescription
protein_id jPOST internal protein ID
accession UniProt ID
symbol UniProt protein symbol
name protein name
protein_type protein type(Leading protein, Spectrum same-set protein Spectrum sub-set protein, Spectrum subsumable protein)
pep_count identified peptide count
psm_count peptide from psm(peptide specrum match) count
uniq_pep_count unique peptide count
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2.3 PSM peptide data

Data name PSM peptide data
Description of data contents

Peptide data from protein spectrum match.

File jpostdb_psm.zip (64.6MB)

Data items are the following:
Data itemDescription
psm_id Internal PSM ID
sequence peptide sequence
accession UniProt ID
exp_mz M/Z value(ratio between mass m and chage z) obtained by experiment
calc_mz M/Z value(ratio between mass m and chage z) value obtained by calculation
charge charge
jpost_score jPOST score
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2.4 PSM peptide modification

Data name PSM peptide modification
Description of data contents

Modification data of PSM peptide

File jpostdb_psm_modification.zip (3035177)

Data items are the following:
Data itemDescription
psm_id Internal PSM ID
modification modification type
site modification site
position position in peptide sequence
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2.5 jPOST database RDF

Data name jPOST database RDF
Description of data contents

jPOST database in RDF format. See https://integbio.jp/rdf/dataset/jpost about RDF schema.

File -
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3. License

Last updated : 2021/08/12

You may use this database in compliance with the terms and conditions of the license described below. The license specifies the license terms regarding the use of this database and the requirements you must follow in using this database.

Creative Commons License

This database is provided under CC0 Public Domein.

E-mail:jpost_address

About Providing Links to This Database

You can freely provide links to all contents in this database. But, contents might be changed without notice.

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4. Update History

DateUpdate contents
2024/06/12 Assigning DOIs.
2021/08/12 jPOST database archive site is opened.
2018/03/26 jPOST (https://repository.jpostdb.org/) is opened.
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5. Literature

Yuki Moriya, Shin Kawano, Shujiro Okuda, Yu Watanabe, Masaki Matsumoto, Tomoyo Takami, Daiki Kobayashi, Yoshinori Yamanouchi, Norie Araki, Akiyasu C. Yoshizawa, Tsuyoshi Tabata, Mio Iwasaki, Naoyuki Sugiyama, Satoshi Tanaka, Susumu Goto, Yasushi Ishihama
The jPOST environment: an integrated proteomics data repository and database
Nucleic Acids Research, Volume 47, Issue D1, 08 January 2019, Pages D1218–D1224. doi: 10.1093/nar/gky899

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6. Contact address

When you have any question about "jPOST database", contact the following:

https://jpostdb.org/contact/

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