Journal
NUCLEIC ACIDS RESEARCH
Volume 42, Issue D1, Pages D167-D171Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkt1165
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Funding
- National Institutes of Health [U54-CA121852, RO1-GM054510]
- NATIONAL CANCER INSTITUTE [U54CA121852] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES [R01GM054510] Funding Source: NIH RePORTER
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We present OnTheFly (http://bhapp.c2b2.columbia. edu/OnTheFly/index.php), a database comprising a systematic collection of transcription factors (TFs) of Drosophila melanogaster and their DNA-binding sites. TFs predicted in the Drosophila melanogaster genome are annotated and classified and their structures, obtained via experiment or homology models, are provided. All known preferred TF DNA-binding sites obtained from the B1H, DNase I and SELEX methodologies are presented. DNA shape parameters predicted for these sites are obtained from a high throughput server or from crystal structures of protein-DNA complexes where available. An important feature of the database is that all DNA-binding domains and their binding sites are fully annotated in a eukaryote using structural criteria and evolutionary homology. OnTheFly thus provides a comprehensive view of TFs and their binding sites that will be a valuable resource for deciphering non-coding regulatory DNA.
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