Searching journal content for articles similar to Sudarsanam et al. 12 (11): 1723.

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  1. ARTICLE: A Motif Co-Occurrence Approach for Genome-Wide Prediction of Transcription-Factor-Binding Sites in Escherichia coli
    • Martha L. Bulyk,
    • Abigail M. McGuire,
    • Nobuhisa Masuda,
    • and George M. Church
    Genome Res. February 2004 14: 201-208; doi:10.1101/gr.1448004
    ...manner, or some other kind of DNA sequence element that functions in an orientation-dependent manner, was either disrupted or created in the binding site knockouts. For example, a sequence-dependent bend upstream of the rRNA promoter P1 in E. coli is responsible for high promoter activity, and both...
  2. Methods: A network of transcriptionally coordinated functional modules in Saccharomyces cerevisiae
    • Allegra A. Petti and
    • George M. Church
    Genome Res. September 2005 15: 1298-1306; Published in Advance August 18, 2005, doi:10.1101/gr.3847105
    ...and transcription, all of which were identified using cell cycle expression data. Moreover, TFs that are known to act synergistically are often found to mediate the same pairwise interaction. For instance, many interactions mediated by mRRPE3 and PAC, which are thought to cooperatively regulate the expression of rRNA...
  3. LETTER: Whole-Genome Discovery of Transcription Factor Binding Sites by Network-Level Conservation
    • Moshe Pritsker,
    • Yir-Chung Liu,
    • Michael A. Beer,
    • and Saeed Tavazoie
    Genome Res. January 2004 14: 99-108; Published in Advance December 12, 2003, doi:10.1101/gr.1739204
    .... Specificity, free energy and information content in protein-DNA interactions. Trends Biochem. Sci. 23 : 109 -113. ↵ Sudarsanam, P., Pilpel, Y., and Church, G.M. 2002 . Genome-wide co-occurrence of promoter elements reveals a cis -regulatory cassette of rRNA transcription motifs in Saccharomyces cerevisiae...
  4. Methods: Discovery, validation, and genetic dissection of transcription factor binding sites by comparative and functional genomics
    • Jason Gertz,
    • Linda Riles,
    • Peter Turnbaugh,
    • Su-Wen Ho,
    • and Barak A. Cohen
    Genome Res. August 2005 15: 1145-1152; doi:10.1101/gr.3859605
    .... Sci. 45 : 18 –29. ↵ Sudarsanam, P., Pilpel, Y., and Church, G.M. 2002 . Genome-wide co-occurrence of promoter elements reveals a cis -regulatory cassette of rRNA transcription motifs in Saccharomyces cerevisiae. Genome Res. 12 : 1723 –1731. ↵ Tavazoie, S., Hughes, J.D., Campbell, M.J., Cho, R...
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