TransfactomeDB -- a resource for exploring the nucleotide sequence specificity and condition-specific regulatory activity of trans-acting factors

URL:
http://bussemakerlab.org/TransfactomeDB/
What you can do:
Find information about the nucleotide sequence specificity of trans-acting factors (TFs) in yeast.
Highlights:
  • The Yeast Transfactome Database is a repository of sequence specificity models and condition-specific regulatory activities for a large number of DNA- and RNA-binding proteins in Saccharomyces cerevisiae.
  • The sequence specificities in TransfactomeDB, represented as position-specific affinity matrices (PSAMs), are directly estimated from genomewide measurements of TF-binding using a previously published MatrixREDUCE algorithm, which is based on a biophysical model.
  • For each mRNA expression profile in the NCBI Gene Expression Omnibus, a sequence-based regression analysis was used to estimate the post-translational regulatory activity of each TF for which a PSAM is available.
  • The trans-factor activity profiles across multiple experiments available in TransfactomeDB allow the user to explore potential regulatory roles of hundreds of TFs in any of thousands of microarray experiments.
Keywords:
  • Saccharomyces cerevisiae
  • yeast
  • trans-acting factor
  • trans factor
  • gene regulatory network
  • post-translational activity
  • post-translation
  • DNA-binding proteins
  • RNA-binding proteins
Literature & Tutorials:
PubMed Link: TransfactomeDB -- a resource for exploring the nucleotide sequence specificity and condition-specific regulatory activity of trans-acting factors
This record last updated: 03-03-2008
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