Dmitry Ravcheev
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Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota
S Magnúsdóttir, A Heinken, L Kutt, DA Ravcheev, E Bauer, A Noronha, ...
Nature biotechnology 35 (1), 81-89, 2017
Systematic genome assessment of B-vitamin biosynthesis suggests co-operation among gut microbes
S Magnúsdóttir, D Ravcheev, V de Crécy-Lagard, I Thiele
Frontiers in genetics 6, 148, 2015
RegPrecise 3.0–a resource for genome-scale exploration of transcriptional regulation in bacteria
PS Novichkov, AE Kazakov, DA Ravcheev, SA Leyn, GY Kovaleva, ...
BMC genomics 14 (1), 1-12, 2013
A Gibbs sampler for identification of symmetrically structured, spaced DNA motifs with improved estimation of the signal length
AV Favorov, MS Gelfand, AV Gerasimova, DA Ravcheev, AA Mironov, ...
Bioinformatics 21 (10), 2240-2245, 2005
Transcriptional regulation of central carbon and energy metabolism in bacteria by redox-responsive repressor Rex
DA Ravcheev, X Li, H Latif, K Zengler, SA Leyn, YD Korostelev, ...
Journal of bacteriology 194 (5), 1145-1157, 2012
The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease
A Noronha, J Modamio, Y Jarosz, E Guerard, N Sompairac, G Preciat, ...
Nucleic acids research 47 (D1), D614-D624, 2019
Polysaccharides utilization in human gut bacterium Bacteroides thetaiotaomicron: comparative genomics reconstruction of metabolic and regulatory networks
DA Ravcheev, A Godzik, AL Osterman, DA Rodionov
BMC genomics 14 (1), 1-17, 2013
Systematic assessment of secondary bile acid metabolism in gut microbes reveals distinct metabolic capabilities in inflammatory bowel disease
A Heinken, DA Ravcheev, F Baldini, L Heirendt, RMT Fleming, I Thiele
Microbiome 7 (1), 1-18, 2019
Visualization of individual DNA loops and a map of loop domains in the human dystrophin gene
OV Iarovaia, A Bystritskiy, D Ravcheev, R Hancock, SV Razin
Nucleic acids research 32 (7), 2079-2086, 2004
Comparative genomics of ethanolamine utilization
O Tsoy, D Ravcheev, A Mushegian
Journal of bacteriology 191 (23), 7157-7164, 2009
Comparative genomic reconstruction of transcriptional networks controlling central metabolism in the Shewanella genus
DA Rodionov, PS Novichkov, ED Stavrovskaya, IA Rodionova, X Li, ...
BMC genomics 12 (1), 1-17, 2011
Redox-responsive repressor Rex modulates alcohol production and oxidative stress tolerance in Clostridium acetobutylicum
L Zhang, X Nie, DA Ravcheev, DA Rodionov, J Sheng, Y Gu, S Yang, ...
Journal of bacteriology 196 (22), 3949-3963, 2014
Comparative genomic analysis of regulation of anaerobic respiration in ten genomes from three families of gamma-proteobacteria (Enterobacteriaceae, Pasteurellaceae, Vibrionaceae)
DA Ravcheev, AV Gerasimova, AA Mironov, MS Gelfand
BMC genomics 8 (1), 1-17, 2007
Comparative genomics and evolution of regulons of the LacI-family transcription factors
DA Ravcheev, MS Khoroshkin, ON Laikova, OV Tsoy, NV Sernova, ...
Frontiers in microbiology 5, 294, 2014
Transcriptional regulation of the carbohydrate utilization network in Thermotoga maritima
DA Rodionov, IA Rodionova, X Li, DA Ravcheev, Y Tarasova, VA Portnoy, ...
Frontiers in microbiology 4, 244, 2013
Inference of the transcriptional regulatory network in Staphylococcus aureus by integration of experimental and genomics-based evidence
DA Ravcheev, AA Best, N Tintle, M DeJongh, AL Osterman, PS Novichkov, ...
Journal of bacteriology 193 (13), 3228-3240, 2011
Nitrogen fixation and molecular oxygen: comparative genomic reconstruction of transcription regulation in Alphaproteobacteria
OV Tsoy, DA Ravcheev, J Čuklina, MS Gelfand
Frontiers in microbiology 7, 1343, 2016
Genomic reconstruction of transcriptional regulatory networks in lactic acid bacteria
DA Ravcheev, AA Best, NV Sernova, MD Kazanov, PS Novichkov, ...
BMC genomics 14 (1), 1-14, 2013
Genomic analysis of the human gut microbiome suggests novel enzymes involved in quinone biosynthesis
DA Ravcheev, I Thiele
Frontiers in microbiology 7, 128, 2016
Regulation and evolution of malonate and propionate catabolism in proteobacteria
IA Suvorova, DA Ravcheev, MS Gelfand
Journal of bacteriology 194 (12), 3234-3240, 2012
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