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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. Among authors: paley s. 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.
Representations of metabolic knowledge: pathways.
Karp PD, Paley SM. Karp PD, et al. Among authors: paley sm. Proc Int Conf Intell Syst Mol Biol. 1994;2:203-11. Proc Int Conf Intell Syst Mol Biol. 1994. PMID: 7584392
Integrated access to metabolic and genomic data.
Karp PD, Paley S. Karp PD, et al. Among authors: paley s. J Comput Biol. 1996 Spring;3(1):191-212. doi: 10.1089/cmb.1996.3.191. J Comput Biol. 1996. PMID: 8697237
Eco Cyc: encyclopedia of Escherichia coli genes and metabolism.
Karp PD, Riley M, Paley SM, Pellegrini-Toole A, Krummenacker M. Karp PD, et al. Among authors: paley sm. Nucleic Acids Res. 1999 Jan 1;27(1):55-8. doi: 10.1093/nar/27.1.55. Nucleic Acids Res. 1999. PMID: 9847140 Free PMC article.
Database verification studies of SWISS-PROT and GenBank.
Karp PD, Paley S, Zhu J. Karp PD, et al. Among authors: paley s. Bioinformatics. 2001 Jun;17(6):526-32; discussion 533-4. doi: 10.1093/bioinformatics/17.6.526. Bioinformatics. 2001. PMID: 11395429
The EcoCyc Database.
Karp PD, Riley M, Saier M, Paulsen IT, Collado-Vides J, Paley SM, Pellegrini-Toole A, Bonavides C, Gama-Castro S. Karp PD, et al. Among authors: paley sm. Nucleic Acids Res. 2002 Jan 1;30(1):56-8. doi: 10.1093/nar/30.1.56. Nucleic Acids Res. 2002. PMID: 11752253 Free PMC article.
107 results