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TRANSFAC, from BIOBASE, is a comprehensive cross-species compilation of data regarding transcription factors, their experimentally-proven binding sites, and regulated genes. Highlights include:
- extensive information on transcription factors and their structures, functions, expression patterns
- a table for in vivo binding sequences from ChIP on chip experiments
- a tool to automatically visualize gene-regulatory networks based on interlinked factor and gene entries in the database
Software Access
Please register to receive installation instructions. Access is Web-based and password-dependent.
Noteworthy Features
- Broad compilation of binding sites allows the derivation of positional weight matrices.
- TRANSFAC's programs, Match and Patch, use the matrices and the site sequences themselves for performing the matrix-or pattern-based search of factor binding sites in regulatory DNA sequences.
- Thus, it is possible to make predictions for most gene promoters, which have not been studied in detail yet.
- Works in conjunction with the ExPlain analysis system to apply a new knowledge driven approach to the analysis of whole complexes of coexpressed genes.
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