Applied bioinformatics for the identification of regulatory elements View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2004-04

AUTHORS

Wyeth W. Wasserman, Albin Sandelin

ABSTRACT

Key PointsPromoter prediction software can succeed for the ∼50% of genes with CpG islands or for genes with abundant transcript data.Predictions of individual transcription-factor binding sites (TFBSs) are unreliable owing to the promiscuous binding of transcription factors.Comparative genome sequence analysis (phylogenetic footprinting) can eliminate up to 90% of false binding-site predictions; however, true sites are still obscured by the false predictions.Analysis of clusters of TFBSs in cis-regulatory modules can generate reliable predictions of regulatory regions.New methods are emerging to improve the detection of sequences that regulate gene transcription. More... »

PAGES

276-287

References to SciGraph publications

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  • 2002-10-24. Computational detection of genomic cis- regulatory modules applied to body patterning in the early Drosophila embryo in BMC BIOINFORMATICS
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  • 2002-07-08. High-throughput SELEX–SAGE method for quantitative modeling of transcription-factor binding sites in NATURE BIOTECHNOLOGY
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nrg1315

    DOI

    http://dx.doi.org/10.1038/nrg1315

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    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/15131651


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