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Items: 1 to 20 of 100

1.

CluePedia Cytoscape plugin: pathway insights using integrated experimental and in silico data.

Bindea G, Galon J, Mlecnik B.

Bioinformatics. 2013 Mar 1;29(5):661-3. doi: 10.1093/bioinformatics/btt019. Epub 2013 Jan 16.

2.

iCTNet: a Cytoscape plugin to produce and analyze integrative complex traits networks.

Wang L, Khankhanian P, Baranzini SE, Mousavi P.

BMC Bioinformatics. 2011 Sep 26;12:380. doi: 10.1186/1471-2105-12-380.

3.

BioQuali Cytoscape plugin: analysing the global consistency of regulatory networks.

Guziolowski C, Bourdé A, Moreews F, Siegel A.

BMC Genomics. 2009 May 26;10:244. doi: 10.1186/1471-2164-10-244.

4.

NOA: a cytoscape plugin for network ontology analysis.

Zhang C, Wang J, Hanspers K, Xu D, Chen L, Pico AR.

Bioinformatics. 2013 Aug 15;29(16):2066-7. doi: 10.1093/bioinformatics/btt334. Epub 2013 Jun 7.

5.

CyClus3D: a Cytoscape plugin for clustering network motifs in integrated networks.

Audenaert P, Van Parys T, Brondel F, Pickavet M, Demeester P, Van de Peer Y, Michoel T.

Bioinformatics. 2011 Jun 1;27(11):1587-8. doi: 10.1093/bioinformatics/btr182. Epub 2011 Apr 8.

PMID:
21478195
6.

PiNGO: a Cytoscape plugin to find candidate genes in biological networks.

Smoot M, Ono K, Ideker T, Maere S.

Bioinformatics. 2011 Apr 1;27(7):1030-1. doi: 10.1093/bioinformatics/btr045. Epub 2011 Jan 28.

7.

Cerebral: a Cytoscape plugin for layout of and interaction with biological networks using subcellular localization annotation.

Barsky A, Gardy JL, Hancock RE, Munzner T.

Bioinformatics. 2007 Apr 15;23(8):1040-2. Epub 2007 Feb 19.

PMID:
17309895
8.

DisGeNET: a Cytoscape plugin to visualize, integrate, search and analyze gene-disease networks.

Bauer-Mehren A, Rautschka M, Sanz F, Furlong LI.

Bioinformatics. 2010 Nov 15;26(22):2924-6. doi: 10.1093/bioinformatics/btq538. Epub 2010 Sep 21.

PMID:
20861032
9.

JEPETTO: a Cytoscape plugin for gene set enrichment and topological analysis based on interaction networks.

Winterhalter C, Widera P, Krasnogor N.

Bioinformatics. 2014 Apr 1;30(7):1029-30. doi: 10.1093/bioinformatics/btt732. Epub 2013 Dec 19.

10.

TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks.

Lepoivre C, Bergon A, Lopez F, Perumal NB, Nguyen C, Imbert J, Puthier D.

BMC Bioinformatics. 2012 Jan 31;13:19. doi: 10.1186/1471-2105-13-19.

11.

SpotXplore: a Cytoscape plugin for visual exploration of hotspot expression in gene regulatory networks.

Westenberg MA, Roerdink JB, Kuipers OP, van Hijum SA.

Bioinformatics. 2010 Nov 15;26(22):2922-3. doi: 10.1093/bioinformatics/btq535. Epub 2010 Sep 21.

12.

ReNE: a cytoscape plugin for regulatory network enhancement.

Politano G, Benso A, Savino A, Di Carlo S.

PLoS One. 2014 Dec 26;9(12):e115585. doi: 10.1371/journal.pone.0115585. eCollection 2014.

13.

GALANT: a Cytoscape plugin for visualizing data as functional landscapes projected onto biological networks.

Camilo E, Bovolenta LA, Acencio ML, Rybarczyk-Filho JL, Castro MA, Moreira JC, Lemke N.

Bioinformatics. 2013 Oct 1;29(19):2505-6. doi: 10.1093/bioinformatics/btt377. Epub 2013 Jul 26.

PMID:
23894138
14.

BiNoM: a Cytoscape plugin for manipulating and analyzing biological networks.

Zinovyev A, Viara E, Calzone L, Barillot E.

Bioinformatics. 2008 Mar 15;24(6):876-7. Epub 2007 Nov 16.

PMID:
18024474
15.

Cytoscape ESP: simple search of complex biological networks.

Ashkenazi M, Bader GD, Kuchinsky A, Moshelion M, States DJ.

Bioinformatics. 2008 Jun 15;24(12):1465-6. doi: 10.1093/bioinformatics/btn208. Epub 2008 Apr 28.

16.

GeneMANIA Cytoscape plugin: fast gene function predictions on the desktop.

Montojo J, Zuberi K, Rodriguez H, Kazi F, Wright G, Donaldson SL, Morris Q, Bader GD.

Bioinformatics. 2010 Nov 15;26(22):2927-8. doi: 10.1093/bioinformatics/btq562. Epub 2010 Oct 5.

17.

Flexible network reconstruction from relational databases with Cytoscape and CytoSQL.

Laukens K, Hollunder J, Dang TH, De Jaeger G, Kuiper M, Witters E, Verschoren A, Van Leemput K.

BMC Bioinformatics. 2010 Jul 1;11:360. doi: 10.1186/1471-2105-11-360.

18.

CySBML: a Cytoscape plugin for SBML.

König M, Dräger A, Holzhütter HG.

Bioinformatics. 2012 Sep 15;28(18):2402-3. doi: 10.1093/bioinformatics/bts432. Epub 2012 Jul 5.

PMID:
22772946
19.

GenePro: a Cytoscape plug-in for advanced visualization and analysis of interaction networks.

Vlasblom J, Wu S, Pu S, Superina M, Liu G, Orsi C, Wodak SJ.

Bioinformatics. 2006 Sep 1;22(17):2178-9.

PMID:
16921162
20.

DrugViz: a Cytoscape plugin for visualizing and analyzing small molecule drugs in biological networks.

Xiong B, Liu K, Wu J, Burk DL, Jiang H, Shen J.

Bioinformatics. 2008 Sep 15;24(18):2117-8. doi: 10.1093/bioinformatics/btn389. Epub 2008 Jul 25.

PMID:
18658180

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