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101 results

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Integration of biological networks and gene expression data using Cytoscape.
Cline MS, Smoot M, Cerami E, Kuchinsky A, Landys N, Workman C, Christmas R, Avila-Campilo I, Creech M, Gross B, Hanspers K, Isserlin R, Kelley R, Killcoyne S, Lotia S, Maere S, Morris J, Ono K, Pavlovic V, Pico AR, Vailaya A, Wang PL, Adler A, Conklin BR, Hood L, Kuiper M, Sander C, Schmulevich I, Schwikowski B, Warner GJ, Ideker T, Bader GD. Cline MS, et al. Among authors: pico ar. Nat Protoc. 2007;2(10):2366-82. doi: 10.1038/nprot.2007.324. Nat Protoc. 2007. PMID: 17947979 Free PMC article.
GenMAPP 2: new features and resources for pathway analysis.
Salomonis N, Hanspers K, Zambon AC, Vranizan K, Lawlor SC, Dahlquist KD, Doniger SW, Stuart J, Conklin BR, Pico AR. Salomonis N, et al. Among authors: pico ar. BMC Bioinformatics. 2007 Jun 24;8:217. doi: 10.1186/1471-2105-8-217. BMC Bioinformatics. 2007. PMID: 17588266 Free PMC article.
WikiPathways: pathway editing for the people.
Pico AR, Kelder T, van Iersel MP, Hanspers K, Conklin BR, Evelo C. Pico AR, et al. PLoS Biol. 2008 Jul 22;6(7):e184. doi: 10.1371/journal.pbio.0060184. PLoS Biol. 2008. PMID: 18651794 Free PMC article.
Presenting and exploring biological pathways with PathVisio.
van Iersel MP, Kelder T, Pico AR, Hanspers K, Coort S, Conklin BR, Evelo C. van Iersel MP, et al. Among authors: pico ar. BMC Bioinformatics. 2008 Sep 25;9:399. doi: 10.1186/1471-2105-9-399. BMC Bioinformatics. 2008. PMID: 18817533 Free PMC article.
Mining biological pathways using WikiPathways web services.
Kelder T, Pico AR, Hanspers K, van Iersel MP, Evelo C, Conklin BR. Kelder T, et al. Among authors: pico ar. PLoS One. 2009 Jul 30;4(7):e6447. doi: 10.1371/journal.pone.0006447. PLoS One. 2009. PMID: 19649250 Free PMC article.
Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation.
Salomonis N, Schlieve CR, Pereira L, Wahlquist C, Colas A, Zambon AC, Vranizan K, Spindler MJ, Pico AR, Cline MS, Clark TA, Williams A, Blume JE, Samal E, Mercola M, Merrill BJ, Conklin BR. Salomonis N, et al. Among authors: pico ar. Proc Natl Acad Sci U S A. 2010 Jun 8;107(23):10514-9. doi: 10.1073/pnas.0912260107. Epub 2010 May 24. Proc Natl Acad Sci U S A. 2010. PMID: 20498046 Free PMC article.
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. Demir E, et al. Nat Biotechnol. 2010 Sep;28(9):935-42. doi: 10.1038/nbt.1666. Epub 2010 Sep 9. Nat Biotechnol. 2010. PMID: 20829833 Free PMC article.
101 results