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In April 2016 Manchester eScholar was replaced by the University of Manchester’s new Research Information Management System, Pure. In the autumn the University’s research outputs will be available to search and browse via a new Research Portal. Until then the University’s full publication record can be accessed via a temporary portal and the old eScholar content is available to search and browse via this archive.

ChEBI in 2016: Improved services and an expanding collection of metabolites

Janna Hastings, Gareth Owen, Adriano Dekker, Marcus Ennis, Namrata Kale, Venkatesh Muthukrishnan, Steve Turner, Neil Swainston, Pedro Mendes, Christoph Steinbeck

Nucleic Acids Research. 2015;.

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Abstract

ChEBI is a database and ontology containing information about chemical entities of biological interest. It currently includes over 46 000 entries, each of which is classified within the ontology and assigned multiple annotations including (where relevant) a chemical structure, database cross-references, synonyms and literature citations. All content is freely available and can be accessed online at http://www.ebi.ac.uk/chebi. In this update paper, we describe recent improvements and additions to the ChEBI offering. We have substantially extended our collection of endogenous metabolites for several organisms including human, mouse, Escherichia coli and yeast. Our front-end has also been reworked and updated, improving the user experience, removing our dependency on Java applets in favour of embedded JavaScript components and moving from a monthly release update to a ‘live’ website. Programmatic access has been improved by the introduction of a library, libChEBI, in Java, Python and Matlab. Furthermore, we have added two new tools, namely an analysis tool, BiNChE, and a query tool for the ontology, OntoQuery.

Bibliographic metadata

Type of resource:
Content type:
Journal article
Publication status:
Published
Publication type:
Original research
Author list:
Janna Hastings, Gareth Owen, Adriano Dekker, Marcus Ennis, Namrata Kale, Venkatesh Muthukrishnan, Steve Turner, Neil Swainston, Pedro Mendes, Christoph Steinbeck
Published date:
2015-10-13
Accepted date:
2015-09-28
Submitted date:
2015-09-15
Article title:
ChEBI in 2016: Improved services and an expanding collection of metabolites
Language:
eng
Journal title:
Nucleic Acids Research
Abbreviated journal title:
N A R
ISSN:
0305-1048
Publisher:
Oxford University Press
Publishers website:
https://nar.oxfordjournals.org/content/early/2015/10/13/nar.gkv1031.full
Digital Object Identifier:
10.1093/nar/gkv1031
Related website(s):
  • ChEBI http://www.ebi.ac.uk/chebi
Funding awarded to University:
  • BBSRC - RESBBSRC
Funder acknowledgement:
Attached files Open Access licence:
Creative Commons Attribution (CC BY)
Attached files embargo period:
Immediate release
Attached files release date:
15th December, 2015
Access state:
Active

Institutional metadata

University researcher(s):
Academic department(s):

Record metadata

Manchester eScholar ID:
uk-ac-man-scw:289559
Created by:
Pedrosa Mendes, Pedro
Created:
15th December, 2015, 15:35:44
Last modified by:
Pedrosa Mendes, Pedro
Last modified:
15th December, 2015, 15:35:44

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