databases > DOI:10.25504/FAIRsharing.8jsya3
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ready PomBase

General Information
PomBase is a model organism database that provides organization of and access to scientific data for the fission yeast Schizosaccharomyces pombe. PomBase supports genomic sequence and features, genome-wide datasets and manual literature curation as well as providing structural and functional annotation and access to large-scale data sets.

Homepage http://www.pombase.org

Countries that developed this resource United Kingdom

Created in 2010

Subjects 





How to cite this record FAIRsharing.org: PomBase; PomBase; DOI: https://doi.org/10.25504/FAIRsharing.8jsya3; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jul 29 2021 6:09 a.m.


This record is maintained by PomBase

Record updated: Nov. 21, 2018, 10:57 a.m. by The FAIRsharing Team.

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Access / Retrieve Data

Conditions of Use

Applies to: Data use

Data Versioning

versioning by genome sequence update https://www.pombase.org/status/sequencing-updates
daily updates https://www.pombase.org
Monthly Chado database dumps (PostgresQL) are available to download http://curation.pombase.org/dumps/releases/
Historical data versions September 2012 - January 2017 https://www.pombase.org/about/version-history

Data Access

web interface https://www.pombase.org
Monthly Chado database dumps (PostgresQL) are available to download http://curation.pombase.org/dumps/releases/



Publications

PomBase 2015: updates to the fission yeast database.

McDowall MD,Harris MA,Lock A,Rutherford K,Staines DM,Bahler J,Kersey PJ,Oliver SG,Wood V
Nucleic Acids Res 2014

View Paper (PubMed) View Publication

Canto: an online tool for community literature curation.

Rutherford KM,Harris MA,Lock A,Oliver SG,Wood V
Bioinformatics 2014

View Paper (PubMed) View Publication

A method for increasing expressivity of Gene Ontology annotations using a compositional approach.

Huntley RP,Harris MA,Alam-Faruque Y,Blake JA,Carbon S,Dietze H,Dimmer EC,Foulger RE,Hill DP,Khodiyar VK,Lock A,Lomax J,Lovering RC,Mutowo-Meullenet P,Sawford T,Van Auken K,Wood V,Mungall CJ
BMC Bioinformatics 2014

View Paper (PubMed) View Publication

The Gene Ontology: enhancements for 2011.


Nucleic Acids Res 2011

View Paper (PubMed) View Publication

Gene Ontology annotations and resources.

Blake JA,Dolan M,Drabkin H,Hill DP,Li N,Sitnikov D,Bridges S,Burgess S,Buza T,McCarthy F,Peddinti D,Pillai L,Carbon S,Dietze H,Ireland A,Lewis SE,Mungall CJ,Gaudet P,Chrisholm RL,Fey P,Kibbe WA,Basu S,Siegele DA,McIntosh BK,Renfro DP,Zweifel AE,Hu JC,Brown NH,Tweedie S,Alam-Faruque Y,Apweiler R,Auchinchloss A,Axelsen K,Bely B,Blatter M-,Bonilla C,Bouguerleret L,Boutet E,Breuza L,Bridge A,Chan WM,Chavali G,Coudert E,Dimmer E,Estreicher A,Famiglietti L,Feuermann M,Gos A,Gruaz-Gumowski N,Hieta R,Hinz C,Hulo C,Huntley R,James J,Jungo F,Keller G,Laiho K,Legge D,Lemercier P,Lieberherr D,Magrane M,Martin MJ,Masson P,Mutowo-Muellenet P,O'Donovan C,Pedruzzi I,Pichler K,Poggioli D,Porras Millan P,Poux S,Rivoire C,Roechert B,Sawford T,Schneider M,Stutz A,Sundaram S,Tognolli M,Xenarios I,Foulgar R,Lomax J,Roncaglia P,Khodiyar VK,Lovering RC,Talmud PJ,Chibucos M,Giglio MG,Chang H-,Hunter S,McAnulla C,Mitchell A,Sangrador A,Stephan R,Harris MA,Oliver SG,Rutherford K,Wood V,Bahler J,Lock A,Kersey PJ,McDowall DM,Staines DM,Dwinell M,Shimoyama M,Laulederkind S,Hayman T,Wang S-,Petri V,Lowry T,D'Eustachio P,Matthews L,Balakrishnan R,Binkley G,Cherry JM,Costanzo MC,Dwight SS,Engel SR,Fisk DG,Hitz BC,Hong EL,Karra K,Miyasato SR,Nash RS,Park J,Skrzypek MS,Weng S,Wong ED,Berardini TZ,Huala E,Mi H,Thomas PD,Chan J,Kishore R,Sternberg P,Van Auken K,Howe D,Westerfield M
Nucleic Acids Res 2012

View Paper (PubMed) View Publication

FYPO: the fission yeast phenotype ontology.

Harris MA,Lock A,Bahler J,Oliver SG,Wood V
Bioinformatics 2013

View Paper (PubMed) View Publication

PomBase: a comprehensive online resource for fission yeast.

Wood V., Harris MA., McDowall MD., Rutherford K., Vaughan BW., Staines DM., Aslett M., Lock A., Bähler J., Kersey PJ., Oliver SG.,
Nucleic Acids Res. 2012

View Paper (PubMed)

Model organism databases: essential resources that need the support of both funders and users.

Oliver SG,Lock A,Harris MA,Nurse P,Wood V
BMC Biol 2016

View Paper (PubMed) View Publication



Implementing Policies

This record is not implemented by any policy.


Credit

Record Maintainer

  • This record is maintained by PomBase

Funds

Maintains

Grant Number(s)