Reactome Pengine: a web-logic API to the Homo sapiens reactome

Abstract Summary Existing ways of accessing data from the Reactome database are limited. Either a researcher is restricted to particular queries defined by a web application programming interface (API) or they have to download the whole database. Reactome Pengine is a web service providing a logic p...

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Veröffentlicht in:Bioinformatics Jg. 34; H. 16; S. 2856 - 2858
Hauptverfasser: Neaves, Samuel R, Tsoka, Sophia, Millard, Louise A C
Format: Journal Article
Sprache:Englisch
Veröffentlicht: England Oxford University Press 15.08.2018
Schlagworte:
Applications Notes
Databases, Factual
Humans
Logic
Software
ISSN:1367-4803, 1367-4811, 1460-2059, 1367-4811
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Zusammenfassung:Abstract Summary Existing ways of accessing data from the Reactome database are limited. Either a researcher is restricted to particular queries defined by a web application programming interface (API) or they have to download the whole database. Reactome Pengine is a web service providing a logic programming-based API to the human reactome. This gives researchers greater flexibility in data access than existing APIs, as users can send their own small programs (alongside queries) to Reactome Pengine. Availability and implementation The server and an example notebook can be found at https://apps.nms.kcl.ac.uk/reactome-pengine. Source code is available at https://github.com/samwalrus/reactome-pengine and a Docker image is available at https://hub.docker.com/r/samneaves/rp4/. Supplementary information Supplementary data are available at Bioinformatics online.
Bibliographie:ObjectType-Article-1
SourceType-Scholarly Journals-1
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content type line 23
ISSN:1367-4803
1367-4811
1460-2059
1367-4811
DOI:10.1093/bioinformatics/bty181