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Journal Article

Annotating significant pairs of transcription factor binding sites in regulatory DNA

MPS-Authors

Rateitschak,  Katja
Max Planck Society;

Mueller,  Tobias
Max Planck Society;

http://pubman.mpdl.mpg.de/cone/persons/resource/persons50613

Vingron,  Martin
Gene regulation (Martin Vingron), Dept. of Computational Molecular Biology (Head: Martin Vingron), Max Planck Institute for Molecular Genetics, Max Planck Society;

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Citation

Rateitschak, K., Mueller, T., & Vingron, M. (2004). Annotating significant pairs of transcription factor binding sites in regulatory DNA. Special Issue: Ontology Workshop Tokyo 2003, 0040-0040.


Cite as: http://hdl.handle.net/11858/00-001M-0000-0010-87E9-B
Abstract
In the presented work we search for transcription factor binding sites (BS) by including additional information about typical BS patterns. The new proposed score combines the ordinary profile score based on TRANSFAC-matrices together with a score based on pairs of BS. The latter score positively weights pairs of BS that tend to occur together in many regulatory DNA-sequences, in contrast to a random background model. The empirical BS pair frequencies result from our evaluation of a large dataset of orthologous genes.