177 related articles for article (PubMed ID: 24068901)
1. Using biological pathway data with paxtools.
Demir E; Babur O; Rodchenkov I; Aksoy BA; Fukuda KI; Gross B; Sümer OS; Bader GD; Sander C
PLoS Comput Biol; 2013; 9(9):e1003194. PubMed ID: 24068901
[TBL] [Abstract][Full Text] [Related]
2. PaxtoolsR: pathway analysis in R using Pathway Commons.
Luna A; Babur Ö; Aksoy BA; Demir E; Sander C
Bioinformatics; 2016 Apr; 32(8):1262-4. PubMed ID: 26685306
[TBL] [Abstract][Full Text] [Related]
3. Pattern search in BioPAX models.
Babur Ö; Aksoy BA; Rodchenkov I; Sümer SO; Sander C; Demir E
Bioinformatics; 2014 Jan; 30(1):139-40. PubMed ID: 24045775
[TBL] [Abstract][Full Text] [Related]
4. MpTheory Java library: a multi-platform Java library for systems biology based on the Metabolic P theory.
Marchetti L; Manca V
Bioinformatics; 2015 Apr; 31(8):1328-30. PubMed ID: 25504849
[TBL] [Abstract][Full Text] [Related]
5. cPath: open source software for collecting, storing, and querying biological pathways.
Cerami EG; Bader GD; Gross BE; Sander C
BMC Bioinformatics; 2006 Nov; 7():497. PubMed ID: 17101041
[TBL] [Abstract][Full Text] [Related]
6. The BioPAX community standard for pathway data sharing.
Demir E; Cary MP; Paley S; Fukuda K; Lemer C; Vastrik I; Wu G; D'Eustachio P; Schaefer C; Luciano J; Schacherer F; Martinez-Flores I; Hu Z; Jimenez-Jacinto V; Joshi-Tope G; Kandasamy K; Lopez-Fuentes AC; Mi H; Pichler E; Rodchenkov I; Splendiani A; Tkachev S; Zucker J; Gopinath G; Rajasimha H; Ramakrishnan R; Shah I; Syed M; Anwar N; Babur O; Blinov M; Brauner E; Corwin D; Donaldson S; Gibbons F; Goldberg R; Hornbeck P; Luna A; Murray-Rust P; Neumann E; Ruebenacker O; Samwald M; van Iersel M; Wimalaratne S; Allen K; Braun B; Whirl-Carrillo M; Cheung KH; Dahlquist K; Finney A; Gillespie M; Glass E; Gong L; Haw R; Honig M; Hubaut O; Kane D; Krupa S; Kutmon M; Leonard J; Marks D; Merberg D; Petri V; Pico A; Ravenscroft D; Ren L; Shah N; Sunshine M; Tang R; Whaley R; Letovksy S; Buetow KH; Rzhetsky A; Schachter V; Sobral BS; Dogrusoz U; McWeeney S; Aladjem M; Birney E; Collado-Vides J; Goto S; Hucka M; Le Novère N; Maltsev N; Pandey A; Thomas P; Wingender E; Karp PD; Sander C; Bader GD
Nat Biotechnol; 2010 Sep; 28(9):935-42. PubMed ID: 20829833
[TBL] [Abstract][Full Text] [Related]
7. JSBML: a flexible Java library for working with SBML.
Dräger A; Rodriguez N; Dumousseau M; Dörr A; Wrzodek C; Le Novère N; Zell A; Hucka M
Bioinformatics; 2011 Aug; 27(15):2167-8. PubMed ID: 21697129
[TBL] [Abstract][Full Text] [Related]
8. Automated programming for bioinformatics algorithm deployment.
Alterovitz G; Jiwaji A; Ramoni MF
Bioinformatics; 2008 Feb; 24(3):450-1. PubMed ID: 18174185
[TBL] [Abstract][Full Text] [Related]
9. A comparison of common programming languages used in bioinformatics.
Fourment M; Gillings MR
BMC Bioinformatics; 2008 Feb; 9():82. PubMed ID: 18251993
[TBL] [Abstract][Full Text] [Related]
10. RGG: a general GUI Framework for R scripts.
Visne I; Dilaveroglu E; Vierlinger K; Lauss M; Yildiz A; Weinhaeusel A; Noehammer C; Leisch F; Kriegner A
BMC Bioinformatics; 2009 Mar; 10():74. PubMed ID: 19254356
[TBL] [Abstract][Full Text] [Related]
11. MOCCASIN: converting MATLAB ODE models to SBML.
Gómez HF; Hucka M; Keating SM; Nudelman G; Iber D; Sealfon SC
Bioinformatics; 2016 Jun; 32(12):1905-6. PubMed ID: 26861819
[TBL] [Abstract][Full Text] [Related]
12. BioPAX-Parser: parsing and enrichment analysis of BioPAX pathways.
Agapito G; Pastrello C; Guzzi PH; Jurisica I; Cannataro M
Bioinformatics; 2020 Aug; 36(15):4377-4378. PubMed ID: 32437515
[TBL] [Abstract][Full Text] [Related]
13. The BioPAX Validator.
Rodchenkov I; Demir E; Sander C; Bader GD
Bioinformatics; 2013 Oct; 29(20):2659-60. PubMed ID: 23918249
[TBL] [Abstract][Full Text] [Related]
14. BioPAX support in CellDesigner.
Mi H; Muruganujan A; Demir E; Matsuoka Y; Funahashi A; Kitano H; Thomas PD
Bioinformatics; 2011 Dec; 27(24):3437-8. PubMed ID: 22021903
[TBL] [Abstract][Full Text] [Related]
15. JSBML 1.0: providing a smorgasbord of options to encode systems biology models.
Rodriguez N; Thomas A; Watanabe L; Vazirabad IY; Kofia V; Gómez HF; Mittag F; Matthes J; Rudolph J; Wrzodek F; Netz E; Diamantikos A; Eichner J; Keller R; Wrzodek C; Fröhlich S; Lewis NE; Myers CJ; Le Novère N; Palsson BØ; Hucka M; Dräger A
Bioinformatics; 2015 Oct; 31(20):3383-6. PubMed ID: 26079347
[TBL] [Abstract][Full Text] [Related]
16. BioRuby: bioinformatics software for the Ruby programming language.
Goto N; Prins P; Nakao M; Bonnal R; Aerts J; Katayama T
Bioinformatics; 2010 Oct; 26(20):2617-9. PubMed ID: 20739307
[TBL] [Abstract][Full Text] [Related]
17. Software support for SBGN maps: SBGN-ML and LibSBGN.
van Iersel MP; Villéger AC; Czauderna T; Boyd SE; Bergmann FT; Luna A; Demir E; Sorokin A; Dogrusoz U; Matsuoka Y; Funahashi A; Aladjem MI; Mi H; Moodie SL; Kitano H; Le Novère N; Schreiber F
Bioinformatics; 2012 Aug; 28(15):2016-21. PubMed ID: 22581176
[TBL] [Abstract][Full Text] [Related]
18. LibSBML: an API library for SBML.
Bornstein BJ; Keating SM; Jouraku A; Hucka M
Bioinformatics; 2008 Mar; 24(6):880-1. PubMed ID: 18252737
[TBL] [Abstract][Full Text] [Related]
19. OpenStructure: an integrated software framework for computational structural biology.
Biasini M; Schmidt T; Bienert S; Mariani V; Studer G; Haas J; Johner N; Schenk AD; Philippsen A; Schwede T
Acta Crystallogr D Biol Crystallogr; 2013 May; 69(Pt 5):701-9. PubMed ID: 23633579
[TBL] [Abstract][Full Text] [Related]
20. BioJava: an open-source framework for bioinformatics.
Holland RC; Down TA; Pocock M; Prlić A; Huen D; James K; Foisy S; Dräger A; Yates A; Heuer M; Schreiber MJ
Bioinformatics; 2008 Sep; 24(18):2096-7. PubMed ID: 18689808
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
