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Items: 1 to 20 of 99

1.

Creating views on integrated multidomain data.

Rohn H, Klukas C, Schreiber F.

Bioinformatics. 2011 Jul 1;27(13):1839-45. doi: 10.1093/bioinformatics/btr282. Epub 2011 May 6.

2.

PathSys: integrating molecular interaction graphs for systems biology.

Baitaluk M, Qian X, Godbole S, Raval A, Ray A, Gupta A.

BMC Bioinformatics. 2006 Feb 7;7:55.

3.

Customizable views on semantically integrated networks for systems biology.

Weile J, Pocock M, Cockell SJ, Lord P, Dewar JM, Holstein EM, Wilkinson D, Lydall D, Hallinan J, Wipat A.

Bioinformatics. 2011 May 1;27(9):1299-306. doi: 10.1093/bioinformatics/btr134. Epub 2011 Mar 16.

4.

FBA-SimVis: interactive visualization of constraint-based metabolic models.

Grafahrend-Belau E, Klukas C, Junker BH, Schreiber F.

Bioinformatics. 2009 Oct 15;25(20):2755-7. doi: 10.1093/bioinformatics/btp408. Epub 2009 Jul 3.

5.

FluxMap: a VANTED add-on for the visual exploration of flux distributions in biological networks.

Rohn H, Hartmann A, Junker A, Junker BH, Schreiber F.

BMC Syst Biol. 2012 May 1;6:33. doi: 10.1186/1752-0509-6-33.

6.

VANTED v2: a framework for systems biology applications.

Rohn H, Junker A, Hartmann A, Grafahrend-Belau E, Treutler H, Klapperstück M, Czauderna T, Klukas C, Schreiber F.

BMC Syst Biol. 2012 Nov 10;6:139. doi: 10.1186/1752-0509-6-139.

7.
8.

Editing, validating and translating of SBGN maps.

Czauderna T, Klukas C, Schreiber F.

Bioinformatics. 2010 Sep 15;26(18):2340-1. doi: 10.1093/bioinformatics/btq407. Epub 2010 Jul 13.

9.

Dynamic exploration and editing of KEGG pathway diagrams.

Klukas C, Schreiber F.

Bioinformatics. 2007 Feb 1;23(3):344-50. Epub 2006 Dec 1.

PMID:
17142815
10.

MAVisto: a tool for the exploration of network motifs.

Schreiber F, Schwöbbermeyer H.

Bioinformatics. 2005 Sep 1;21(17):3572-4. Epub 2005 Jul 14.

PMID:
16020473
11.

SEMEDA: ontology based semantic integration of biological databases.

Köhler J, Philippi S, Lange M.

Bioinformatics. 2003 Dec 12;19(18):2420-7.

PMID:
14668226
12.

SBEAMS-Microarray: database software supporting genomic expression analyses for systems biology.

Marzolf B, Deutsch EW, Moss P, Campbell D, Johnson MH, Galitski T.

BMC Bioinformatics. 2006 Jun 6;7:286.

13.

CentiLib: comprehensive analysis and exploration of network centralities.

Gräßler J, Koschützki D, Schreiber F.

Bioinformatics. 2012 Apr 15;28(8):1178-9. doi: 10.1093/bioinformatics/bts106. Epub 2012 Mar 5.

PMID:
22390940
14.

Ultra-Structure database design methodology for managing systems biology data and analyses.

Maier CW, Long JG, Hemminger BM, Giddings MC.

BMC Bioinformatics. 2009 Aug 19;10:254. doi: 10.1186/1471-2105-10-254.

15.

Towards cooperative frameworks for modeling and integrating biological processes knowledge.

Fernández-Breis JT, Martínez-Béjar R, Vivancos-Vicente PJ, Valencia-García R, García-Sánchez F.

IEEE Trans Nanobioscience. 2004 Sep;3(3):164-71.

PMID:
15473068
16.

CEBS object model for systems biology data, SysBio-OM.

Xirasagar S, Gustafson S, Merrick BA, Tomer KB, Stasiewicz S, Chan DD, Yost KJ 3rd, Yates JR 3rd, Sumner S, Xiao N, Waters MD.

Bioinformatics. 2004 Sep 1;20(13):2004-15. Epub 2004 Mar 25.

PMID:
15044233
17.

JXP4BIGI: a generalized, Java XML-based approach for biological information gathering and integration.

Huang Y, Ni T, Zhou L, Su S.

Bioinformatics. 2003 Dec 12;19(18):2351-8.

PMID:
14668218
18.

Enabling high-throughput data management for systems biology: the Bioinformatics Resource Manager.

Shah AR, Singhal M, Klicker KR, Stephan EG, Wiley HS, Waters KM.

Bioinformatics. 2007 Apr 1;23(7):906-9. Epub 2007 Feb 25.

PMID:
17324940
19.

ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining.

Huan T, Sivachenko AY, Harrison SH, Chen JY.

BMC Bioinformatics. 2008 Aug 12;9 Suppl 9:S5. doi: 10.1186/1471-2105-9-S9-S5.

20.

A model diagram layout extension for SBML.

Gauges R, Rost U, Sahle S, Wegner K.

Bioinformatics. 2006 Aug 1;22(15):1879-85. Epub 2006 May 18.

PMID:
16709586

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