Challenges in integrating Escherichia coli molecular biology data
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Miguel Rocha | Eugénio C. Ferreira | Isabel Rocha | Anália Lourenço | Sónia Carneiro | E. Ferreira | I. Rocha | Miguel Rocha | A. Lourenço | Sónia Carneiro
[1] N. W. Davis,et al. The complete genome sequence of Escherichia coli K-12. , 1997, Science.
[2] Michael Darsow,et al. ChEBI: a database and ontology for chemical entities of biological interest , 2007, Nucleic Acids Res..
[3] Joyce A. Mitchell,et al. The BioMediator System as a Data Integration Tool to Answer Diverse Biologic Queries , 2004, MedInfo.
[4] Priyanka Gupta,et al. BioWarehouse: a bioinformatics database warehouse toolkit , 2006, BMC Bioinformatics.
[5] L. Stein. Integrating biological databases , 2003, Nature Reviews Genetics.
[6] Renate Kania,et al. SABIO-RK: A data warehouse for biochemical reactions and their kinetics , 2007, J. Integr. Bioinform..
[7] Rafael C. Jimenez,et al. The IntAct molecular interaction database in 2012 , 2011, Nucleic Acids Res..
[8] Jacob Köhler,et al. Integration of life science databases , 2004 .
[9] Thomas Steinke,et al. Columba: Multidimensional Data Integration of Protein Annotations , 2004, DILS.
[10] Zhilei Chen,et al. A highly sensitive selection method for directed evolution of homing endonucleases , 2005, Nucleic acids research.
[11] Christie S. Chang,et al. The BioGRID interaction database: 2013 update , 2012, Nucleic Acids Res..
[12] Carole A. Goble,et al. TAMBIS: Transparent Access to Multiple Bioinformatics Information Sources , 1998, ISMB.
[13] Christina Backes,et al. BNDB – The Biochemical Network Database , 2007, BMC Bioinformatics.
[14] Martin Hofmann-Apitius,et al. Chemical Names: Terminological Resources and Corpora Annotation , 2008, LREC 2008.
[15] Antje Chang,et al. BRENDA, AMENDA and FRENDA: the enzyme information system in 2007 , 2007, Nucleic Acids Res..
[16] Denis Thieffry,et al. RegulonDB: a database on transcriptional regulation in Escherichia coli , 1998, Nucleic Acids Res..
[17] Peter D. Karp,et al. The comprehensive updated regulatory network of Escherichia coli K-12 , 2006, BMC Bioinformatics.
[18] Nomenclature Committee of the International Union of Biochemistry (NC-IUB). Enzyme nomenclature. Recommendations 1984. Supplement 1: Corrections and additions. , 1986, European journal of biochemistry.
[19] Beatriz García Jiménez,et al. EcID. A database for the inference of functional interactions in E. coli , 2008, Nucleic Acids Res..
[20] E. Webb,et al. Enzyme nomenclature. Recommendations 1984. Supplement 2: corrections and additions. , 1989, European journal of biochemistry.
[21] Jacob Köhler,et al. Addressing the problems with life-science databases for traditional uses and systems biology , 2006, Nature Reviews Genetics.
[22] J. Förster,et al. Design and application of genome-scale reconstructed metabolic models. , 2008, Methods in molecular biology.
[23] Monica Riley,et al. Escherichia coli K-12: a cooperatively developed annotation snapshot—2005 , 2006, Nucleic acids research.
[24] Antje Chang,et al. BRENDA, AMENDA and FRENDA the enzyme information system: new content and tools in 2009 , 2008, Nucleic Acids Res..
[25] P. Argos,et al. SRS: information retrieval system for molecular biology data banks. , 1996, Methods in enzymology.
[26] Livia Perfetto,et al. MINT, the molecular interaction database: 2009 update , 2009, Nucleic Acids Res..
[27] Peter D. Karp,et al. The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases , 2007, Nucleic Acids Res..
[28] Lincoln Stein,et al. Reactome knowledgebase of human biological pathways and processes , 2008, Nucleic Acids Res..
[29] Kara Dolinski,et al. The BioGRID Interaction Database: 2008 update , 2008, Nucleic Acids Res..
[30] Peter D. Karp,et al. EcoCyc: a comprehensive database resource for Escherichia coli , 2004, Nucleic Acids Res..
[31] Junjun Zhang,et al. BioMart Central Portal—unified access to biological data , 2009, Nucleic Acids Res..
[32] Michael R. Seringhaus,et al. Uncovering trends in gene naming , 2008, Genome Biology.
[33] L. Wackett. An annotated selection of World Wide Web sites relevant to the topics in Microbial Biotechnology , 2013, Microbial biotechnology.
[34] David L. Wheeler,et al. GenBank , 2015, Nucleic Acids Res..
[35] Michael Y. Galperin,et al. The 2010 Nucleic Acids Research Database Issue and online Database Collection: a community of data resources , 2009, Nucleic Acids Res..
[36] Renata C Geer,et al. Entrez: making use of its power. , 2003, Briefings in bioinformatics.
[37] Christopher J. Rawlings,et al. Data integration for plant genomics - exemplars from the integration of Arabidopsis thaliana databases , 2009, Briefings Bioinform..
[38] Svetlana Gerdes,et al. Microbial Gene Essentiality: Protocols and Bioinformatics , 2008, Methods in Molecular Biology™.
[39] M. Vidal,et al. Integrating 'omic' information: a bridge between genomics and systems biology. , 2003, Trends in genetics : TIG.
[40] Cathy H. Wu,et al. The Universal Protein Resource (UniProt) , 2006, Nucleic Acids Research.
[41] Julio Collado-Vides,et al. RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions , 2005, Nucleic Acids Res..
[42] Ibrahim Emam,et al. ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression , 2008, Nucleic Acids Res..
[43] R. E. O'Dette. The CAS data base , 1977 .
[44] José Francisco Aldana Montes,et al. KA-SB: from data integration to large scale reasoning , 2009, BMC Bioinformatics.
[45] Martin Hofmann-Apitius,et al. Detection of IUPAC and IUPAC-like chemical names , 2008, ISMB.
[46] T. Tatusova,et al. Entrez Gene: gene-centered information at NCBI , 2010, Nucleic Acids Res..
[47] David Weininger,et al. SMILES, a chemical language and information system. 1. Introduction to methodology and encoding rules , 1988, J. Chem. Inf. Comput. Sci..
[48] 中尾 光輝,et al. KEGG(Kyoto Encyclopedia of Genes and Genomes)〔和文〕 (特集 ゲノム医学の現在と未来--基礎と臨床) -- (データベース) , 2000 .
[49] Hiroaki Kitano,et al. Looking beyond the details: a rise in system-oriented approaches in genetics and molecular biology , 2002, Current Genetics.
[50] Christopher J. Rawlings,et al. Graph-based analysis and visualization of experimental results with ONDEX , 2006, Bioinform..