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Page 1
Overview of the interactive task in BioCreative V.
Wang Q, S Abdul S, Almeida L, Ananiadou S, Balderas-Martínez YI, Batista-Navarro R, Campos D, Chilton L, Chou HJ, Contreras G, Cooper L, Dai HJ, Ferrell B, Fluck J, Gama-Castro S, George N, Gkoutos G, Irin AK, Jensen LJ, Jimenez S, Jue TR, Keseler I, Madan S, Matos S, McQuilton P, Milacic M, Mort M, Natarajan J, Pafilis E, Pereira E, Rao S, Rinaldi F, Rothfels K, Salgado D, Silva RM, Singh O, Stefancsik R, Su CH, Subramani S, Tadepally HD, Tsaprouni L, Vasilevsky N, Wang X, Chatr-Aryamontri A, Laulederkind SJ, Matis-Mitchell S, McEntyre J, Orchard S, Pundir S, Rodriguez-Esteban R, Van Auken K, Lu Z, Schaeffer M, Wu CH, Hirschman L, Arighi CN. Wang Q, et al. Database (Oxford). 2016 Sep 1;2016:baw119. doi: 10.1093/database/baw119. Print 2016. Database (Oxford). 2016. PMID: 27589961 Free PMC article.
EcoCyc: a comprehensive database resource for Escherichia coli.
Keseler IM, Collado-Vides J, Gama-Castro S, Ingraham J, Paley S, Paulsen IT, Peralta-Gil M, Karp PD. Keseler IM, et al. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D334-7. doi: 10.1093/nar/gki108. Nucleic Acids Res. 2005. PMID: 15608210 Free PMC article.
EcoCyc: a comprehensive view of Escherichia coli biology.
Keseler IM, Bonavides-Martínez C, Collado-Vides J, Gama-Castro S, Gunsalus RP, Johnson DA, Krummenacker M, Nolan LM, Paley S, Paulsen IT, Peralta-Gil M, Santos-Zavaleta A, Shearer AG, Karp PD. Keseler IM, et al. Nucleic Acids Res. 2009 Jan;37(Database issue):D464-70. doi: 10.1093/nar/gkn751. Epub 2008 Oct 30. Nucleic Acids Res. 2009. PMID: 18974181 Free PMC article.
Strategies towards digital and semi-automated curation in RegulonDB.
Rinaldi F, Lithgow O, Gama-Castro S, Solano H, Lopez A, Muñiz Rascado LJ, Ishida-Gutiérrez C, Méndez-Cruz CF, Collado-Vides J. Rinaldi F, et al. Database (Oxford). 2017 Jan 1;2017(1):bax012. doi: 10.1093/database/bax012. Database (Oxford). 2017. PMID: 28365731 Free PMC article.
Strategies towards digital and semi-automated curation in RegulonDB.
Rinaldi F, Lithgow O, Gama-Castro S, Solano H, López-Fuentes A, Muñiz Rascado LJ, Ishida-Gutiérrez C, Méndez-Cruz CF, Collado-Vides J. Rinaldi F, et al. Database (Oxford). 2017 Jan 1;2017:bax012. doi: 10.1093/database/bax029. Database (Oxford). 2017. PMID: 28605767 Free PMC article. No abstract available.
Lisen&Curate: A platform to facilitate gathering textual evidence for curation of regulation of transcription initiation in bacteria.
Díaz-Rodríguez M, Lithgow-Serrano O, Guadarrama-García F, Tierrafría VH, Gama-Castro S, Solano-Lira H, Salgado H, Rinaldi F, Méndez-Cruz CF, Collado-Vides J. Díaz-Rodríguez M, et al. Among authors: gama castro s. Biochim Biophys Acta Gene Regul Mech. 2021 Nov-Dec;1864(11-12):194753. doi: 10.1016/j.bbagrm.2021.194753. Epub 2021 Aug 28. Biochim Biophys Acta Gene Regul Mech. 2021. PMID: 34461312 Free PMC article.
EcoCyc: fusing model organism databases with systems biology.
Keseler IM, Mackie A, Peralta-Gil M, Santos-Zavaleta A, Gama-Castro S, Bonavides-Martínez C, Fulcher C, Huerta AM, Kothari A, Krummenacker M, Latendresse M, Muñiz-Rascado L, Ong Q, Paley S, Schröder I, Shearer AG, Subhraveti P, Travers M, Weerasinghe D, Weiss V, Collado-Vides J, Gunsalus RP, Paulsen I, Karp PD. Keseler IM, et al. Nucleic Acids Res. 2013 Jan;41(Database issue):D605-12. doi: 10.1093/nar/gks1027. Epub 2012 Nov 9. Nucleic Acids Res. 2013. PMID: 23143106 Free PMC article.
RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more.
Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J. Salgado H, et al. Nucleic Acids Res. 2013 Jan;41(Database issue):D203-13. doi: 10.1093/nar/gks1201. Epub 2012 Nov 29. Nucleic Acids Res. 2013. PMID: 23203884 Free PMC article.
The EcoCyc Database.
Karp PD, Weaver D, Paley S, Fulcher C, Kubo A, Kothari A, Krummenacker M, Subhraveti P, Weerasinghe D, Gama-Castro S, Huerta AM, Muñiz-Rascado L, Bonavides-Martinez C, Weiss V, Peralta-Gil M, Santos-Zavaleta A, Schröder I, Mackie A, Gunsalus R, Collado-Vides J, Keseler IM, Paulsen I. Karp PD, et al. EcoSal Plus. 2014 May;6(1):10.1128/ecosalplus.ESP-0009-2013. doi: 10.1128/ecosalplus.ESP-0009-2013. EcoSal Plus. 2014. PMID: 26442933 Free PMC article.
43 results