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Regulon inference without arbitrary thresholds: three levels of sensitivity

Description: Reconstruction of transcriptional regulatory networks is one of the major challenges facing the bioinformatics community in view of constantly growing number of complete genomes. The comparative genomics approach has been successfully used for the analysis of the transcriptional regulation of many metabolic systems in various bacteria taxa. The key step in this approach is given a position weight matrix, find an optimal threshold for the search of potential binding sites in genomes. In our prev… more
Date: November 15, 2010
Creator: Dubchak, Pavel Novichkov, Elena Stavrovskaya, Dmitry Rodionov, Andrey Mironov, Inna; Rodionov, Dmitry; Mironov, Andrey; Dubchak, Inna & Novichkov, P.S.
Partner: UNT Libraries Government Documents Department

Reference set of regulons in Desulfovibrionales inferred by comparative genomics approach

Description: in this study, we carried out large-scale comparative genomics analysis of regulatory interactions in Desulfovibrio vulgaris and 12 related genomes from Desulfovibrionales order using our recently developed web server RegPredict (http://regpredict.lbl.gov). An overall reference collection of 26 Desulfovibrionales regulogs can be accessed through RegPrecise database (http://regpredict.lbl.gov).
Date: November 15, 2010
Creator: Kazakov, Alexey E.; Rodionov, Dmitry A.; Price, Morgan N.; Arkin, Adam P.; Dubchak, Inna & Novichkov, Pavel S.
Partner: UNT Libraries Government Documents Department
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