RegPrecise 3.0 – A resource for genome-scale exploration of transcriptional regulation in bacteria
暂无分享,去创建一个
William J. Riehl | A. Arkin | I. Dubchak | M. Kazanov | D. Rodionov | D. Ravcheev | Semen A. Leyn | P. Novichkov | R. Sutormin | A. Kazakov | G. Y. Kovaleva | W. Riehl
[1] M. Saier,et al. Comparative genomics of metabolic capacities of regulons controlled by cis-regulatory RNA motifs in bacteria , 2013, BMC Genomics.
[2] Karsten Zengler,et al. Transcriptional regulation of the carbohydrate utilization network in Thermotoga maritima , 2013, Front. Microbiol..
[3] E. O. Ermakova,et al. Genomic Reconstruction of the Transcriptional Regulatory Network in Bacillus subtilis , 2013, Journal of bacteriology.
[4] M. Gelfand,et al. Functional diversification of ROK-family transcriptional regulators of sugar catabolism in the Thermotogae phylum , 2012, Nucleic acids research.
[5] A. Arkin,et al. Transcription Factor Family-Based Reconstruction of Singleton Regulons and Study of the Crp/Fnr, ArsR, and GntR Families in Desulfovibrionales Genomes , 2012, Journal of bacteriology.
[6] Inna Dubchak,et al. RegTransBase – a database of regulatory sequences and interactions based on literature: a resource for investigating transcriptional regulation in prokaryotes , 2013, BMC Genomics.
[7] Dmitry A Rodionov,et al. Genomic reconstruction of transcriptional regulatory networks in lactic acid bacteria , 2013, BMC Genomics.
[8] Inna Dubchak,et al. RegPrecise web services interface: programmatic access to the transcriptional regulatory interactions in bacteria reconstructed by comparative genomics , 2012, Nucleic Acids Res..
[9] J. Kalinowski,et al. Phenylacetic Acid Catabolism and Its Transcriptional Regulation in Corynebacterium glutamicum , 2012, Applied and Environmental Microbiology.
[10] Karsten Zengler,et al. Transcriptional Regulation of Central Carbon and Energy Metabolism in Bacteria by Redox-Responsive Repressor Rex , 2011, Journal of bacteriology.
[11] Andrei L Osterman,et al. Control of Proteobacterial Central Carbon Metabolism by the HexR Transcriptional Regulator , 2011, The Journal of Biological Chemistry.
[12] Inna Dubchak,et al. Comparative genomic reconstruction of transcriptional networks controlling central metabolism in the Shewanella genus , 2011, BMC Genomics.
[13] Adam P. Arkin,et al. GLAMM: Genome-Linked Application for Metabolic Maps , 2011, Nucleic Acids Res..
[14] M. Gelfand,et al. Comparative Genomic Analysis of the Hexuronate Metabolism Genes and Their Regulation in Gammaproteobacteria , 2011, Journal of bacteriology.
[15] Matthew DeJongh,et al. Inference of the Transcriptional Regulatory Network in Staphylococcus aureus by Integration of Experimental and Genomics-Based Evidence , 2011, Journal of bacteriology.
[16] Inna Dubchak,et al. RegPredict: an integrated system for regulon inference in prokaryotes by comparative genomics approach , 2010, Nucleic Acids Res..
[17] Inna Dubchak,et al. MicrobesOnline: an integrated portal for comparative and functional genomics , 2009, Nucleic Acids Res..
[18] Inna Dubchak,et al. RegPrecise: a database of curated genomic inferences of transcriptional regulatory interactions in prokaryotes , 2009, Nucleic Acids Res..
[19] Sean R. Eddy,et al. Infernal 1.0: inference of RNA alignments , 2009, Bioinform..
[20] Cyrus Chothia,et al. SUPERFAMILY—sophisticated comparative genomics, data mining, visualization and phylogeny , 2008, Nucleic Acids Res..
[21] Robert D. Finn,et al. Rfam: updates to the RNA families database , 2008, Nucleic Acids Res..
[22] Inna Dubchak,et al. Comparative Genomics of Regulation of Fatty Acid and Branched-Chain Amino Acid Utilization in Proteobacteria , 2008, Journal of bacteriology.
[23] E. Birney,et al. Pfam: the protein families database , 2013, Nucleic Acids Res..
[24] R. Knight,et al. Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers , 2008, Nucleic acids research.
[25] Petr Dráber,et al. Tetraalkylammonium derivatives as real-time PCR enhancers and stabilizers of the qPCR mixtures containing SYBR Green I , 2008, Nucleic acids research.
[26] Mikhail S. Gelfand,et al. Transcriptional regulation of NAD metabolism in bacteria: genomic reconstruction of NiaR (YrxA) regulon , 2008, Nucleic acids research.
[27] Dmitry A. Rodionov,et al. Transcriptional regulation of NAD metabolism in bacteria: NrtR family of Nudix-related regulators , 2008, Nucleic acids research.
[28] Julio Collado-Vides,et al. RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation , 2007, Nucleic Acids Res..
[29] Kenta Nakai,et al. DBTBS: a database of transcriptional regulation in Bacillus subtilis containing upstream intergenic conservation information , 2007, Nucleic Acids Res..
[30] D. Rodionov. Comparative Genomic Reconstruction of Transcriptional Regulatory Networks in Bacteria , 2007 .
[31] Jan Baumbach,et al. CoryneRegNet 4.0 – A reference database for corynebacterial gene regulatory networks , 2007, BMC Bioinformatics.
[32] Dmitry A Rodionov,et al. Comparative genomic reconstruction of transcriptional regulatory networks in bacteria. , 2007, Chemical reviews.
[33] Mikhail S. Gelfand,et al. Computational Reconstruction of Iron- and Manganese-Responsive Transcriptional Networks in α-Proteobacteria , 2006, PLoS Comput. Biol..
[34] Naryttza N. Diaz,et al. The Subsystems Approach to Genome Annotation and its Use in the Project to Annotate 1000 Genomes , 2005, Nucleic acids research.
[35] Inna Dubchak,et al. Dissimilatory Metabolism of Nitrogen Oxides in Bacteria: Comparative Reconstruction of Transcriptional Networks , 2005, PLoS Comput. Biol..
[36] M. Gelfand,et al. Identification of a bacterial regulatory system for ribonucleotide reductases by phylogenetic profiling. , 2005, Trends in genetics : TIG.
[37] Inna Dubchak,et al. Reconstruction of regulatory and metabolic pathways in metal-reducing δ-proteobacteria , 2004, Genome Biology.
[38] Inna Dubchak,et al. Reconstruction Of Regulatory And Metabolic Pathways In Metal-Reducing delta-Proteobacteria , 2004 .
[39] Darren A. Natale,et al. The COG database: an updated version includes eukaryotes , 2003, BMC Bioinformatics.
[40] Dmitry A Rodionov,et al. Conservation of the biotin regulon and the BirA regulatory signal in Eubacteria and Archaea. , 2002, Genome research.
[41] M S Gelfand,et al. Transcriptional regulation of pentose utilisation systems in the Bacillus/Clostridium group of bacteria. , 2001, FEMS microbiology letters.
[42] G D Stormo,et al. A comparative genomics approach to prediction of new members of regulons. , 2001, Genome research.
[43] J. Liu,et al. Phylogenetic footprinting of transcription factor binding sites in proteobacterial genomes. , 2001, Nucleic acids research.
[44] G. Church,et al. Predicting regulons and their cis-regulatory motifs by comparative genomics. , 2000, Nucleic acids research.
[45] E. Koonin,et al. Computer analysis of transcription regulatory patterns in completely sequenced bacterial genomes. , 1999, Nucleic acids research.