A Cytoscape app for motif enumeration with ISMAGS

Van Parys, Thomas; Melckenbeeck, Ine; Houbraken, Maarten; Audenaert, Pieter; Colle, Didier; Pickavet, Mario; Demeester, Piet; Van de Peer, Yves

dc.contributor.author	Van Parys, Thomas
dc.contributor.author	Melckenbeeck, Ine
dc.contributor.author	Houbraken, Maarten
dc.contributor.author	Audenaert, Pieter
dc.contributor.author	Colle, Didier
dc.contributor.author	Pickavet, Mario
dc.contributor.author	Demeester, Piet
dc.contributor.author	Van de Peer, Yves
dc.date.accessioned	2017-05-02T12:26:36Z
dc.date.issued	2017-02
dc.description.abstract	SUMMARY : We present a Cytoscape app for the ISMAGS algorithm, which can enumerate all instances of a motif in a graph, making optimal use of the motif’s symmetries to make the search more efficient. The Cytoscape app provides a handy interface for this algorithm,which allows more efficient network analysis. AVAILABILITY AND IMPLEMENTATION : The Cytoscape app for ISMAGS can be freely downloaded from the Cytoscape App store http://apps.cytoscape.org/apps/ismags. Source code and documentation for ISMAGS are available at https://github.com/biointec/ismags. Source code and documentation for the Cytoscape app are available at https://gitlab.psb.ugent.be/thpar/ISMAGS_Cytoscape.	en_ZA
dc.description.department	Genetics	en_ZA
dc.description.embargo	2018-02-28
dc.description.librarian	hb2017	en_ZA
dc.description.sponsorship	Ghent University; iMinds; a PhD fellowship of the Research Foundation – Flanders to MH and the Multidisciplinary Research Partnership ‘Bioinformatics: from nucleotides to networks’ Project (no. 01MR0310W) of Ghent University and the European Union Seventh Framework Programme (FP7/2007-2013) under European Research Council Advanced Grant Agreement 322739-DOUBLEUP.	en_ZA
dc.description.uri	http://bioinformatics.oxfordjournals.org	en_ZA
dc.identifier.citation	Van Parys, T, Melckenbeeck, I, Houbraken, M, Audenaert, P, Colle, D, Pickavet, M, Demeester, P & Van de Peer, Y 2017, 'A Cytoscape app for motif enumeration with ISMAGS, Bioinformatics, vol. 33, no. 3, pp. 461-463.	en_ZA
dc.identifier.issn	1367-4803 (print)
dc.identifier.issn	1460-2059 (online)
dc.identifier.other	10.1093/bioinformatics/btw626
dc.identifier.uri	http://hdl.handle.net/2263/60160
dc.language.iso	en	en_ZA
dc.publisher	Oxford University Press	en_ZA
dc.rights	© The Authors 2016. Published by Oxford University Press. This is a pre-copy-editing, author-produced PDF of an article accepted for publication in Bioinformatics following peer review. The definitive publisher-authenticated version is : Title, Bioinformatics, vol. 33, no. 3, pp. 461-463, 2017. doi : 10.1093/bioinformatics/btw626, is available online at : http://beheco.oxfordjournals.org.	en_ZA
dc.subject	Cytoscape app	en_ZA
dc.subject	Network motifs	en_ZA
dc.subject	Motifs in protein	en_ZA
dc.subject	ISMAGS	en_ZA
dc.title	A Cytoscape app for motif enumeration with ISMAGS	en_ZA
dc.type	Postprint Article	en_ZA