C
Carlos Rodriguez-Penagos
Researcher at National Autonomous University of Mexico
Publications - 13
Citations - 1137
Carlos Rodriguez-Penagos is an academic researcher from National Autonomous University of Mexico. The author has contributed to research in topics: Information extraction & Biological database. The author has an hindex of 8, co-authored 12 publications receiving 1108 citations.
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Journal ArticleDOI
RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation
Socorro Gama-Castro,Verónica Jiménez-Jacinto,Martín Peralta-Gil,Alberto Santos-Zavaleta,Mónica I Peñaloza-Spínola,Bruno Contreras-Moreira,Juan Segura-Salazar,Luis Muñiz-Rascado,Irma Martínez-Flores,Heladia Salgado,César Bonavides-Martínez,Cei Abreu-Goodger,Carlos Rodriguez-Penagos,Juan Miranda-Ríos,Enrique Morett,Enrique Merino,Araceli M. Huerta,Luis G. Treviño-Quintanilla,Julio Collado-Vides +18 more
TL;DR: The improvements, new biology and new features available in RegulonDB v.6.0 now expands beyond transcription initiation, including RNA regulatory elements, specifically riboswitches, attenuators and small RNAs, with their known associated targets.
Journal ArticleDOI
Overview of the protein-protein interaction annotation extraction task of BioCreative II
TL;DR: The BioCreative II PPI task is the first attempt to compare the performance of text-mining tools specific for each of the basic steps of the PPI extraction pipeline, and challenges identified range from problems in full-text format conversion of articles to difficulties in detecting interactor protein pairs and then linking them to their database records.
Introducing meta-services for biomedical information extraction
Florian Leitner,Martin Krallinger,Carlos Rodriguez-Penagos,Jörg Hakenberg,Jörg Hakenberg,Conrad Plake,Cheng-Ju Kuo,Cheng-Ju Kuo,Chun-Nan Hsu,Richard Tzong-Han Tsai,Hsi-Chuan Hung,William W. Lau,Calvin A. Johnson,Rune Sætre,Kazuhiro Yoshida,Yan Hua Chen,Sun Kim,Soo-Yong Shin,Byoung-Tak Zhang,William A. Baumgartner,Lawrence Hunter,Barry Haddow,Michael Matthews,Xinglong Wang,Patrick Ruch,Frédéric Ehrler,Arzucan Özgür,Gunes Erkan,Dragomir R. Radev,Michael Krauthammer,ThaiBinh Luong,Robert Hoffmann,Chris Sander,Alfonso Valencia +33 more
TL;DR: The BioCreative MetaServer (BCMS) as discussed by the authors is a meta-service for information extraction in molecular biology, which provides automatically generated annotations for PubMed/Medline abstracts.
Journal ArticleDOI
Introducing meta-services for biomedical information extraction
Florian Leitner,Martin Krallinger,Carlos Rodriguez-Penagos,Jörg Hakenberg,Jörg Hakenberg,Conrad Plake,Cheng-Ju Kuo,Cheng-Ju Kuo,Chun-Nan Hsu,Richard Tzong-Han Tsai,Hsi-Chuan Hung,William W. Lau,Calvin A. Johnson,Rune Sætre,Kazuhiro Yoshida,Yan Hua Chen,Sun Kim,Soo-Yong Shin,Byoung-Tak Zhang,William A. Baumgartner,Lawrence Hunter,Barry Haddow,Michael Matthews,Xinglong Wang,Patrick Ruch,Frédéric Ehrler,Arzucan Özgür,Gunes Erkan,Dragomir R. Radev,Michael Krauthammer,ThaiBinh Luong,Robert Hoffmann,Chris Sander,Alfonso Valencia +33 more
TL;DR: The first meta-service for information extraction in molecular biology, the BioCreative MetaServer (BCMS), provides automatically generated annotations for PubMed/Medline abstracts and is intended to be used by biomedical researchers and database annotators, and in biomedical language processing.
Journal ArticleDOI
Automatic reconstruction of a bacterial regulatory network using Natural Language Processing
TL;DR: A state-of-the-art Natural Language Processing system that creates computer-readable networks of regulatory interactions directly from different collections of abstracts and full-text papers to understand how automatic annotation using Text-Mining techniques can complement manual curation of biological databases.