ORegAnno: an open access database and curation system for literature-derived promoters, transcription factor binding sites and regulatory variation.
BACKGROUND
Our understanding of gene regulation is currently limited by our ability to collectively synthesize and catalogue transcriptional regulatory elements stored in scientific literature. Over the past decade, this task has become increasingly challenging as the accrual of biologically validated regulatory sequences has accelerated. To meet this challenge, novel community-based approaches to regulatory element annotation are required.


CONCLUSIONS
Here, we present the Open Regulatory Annotation (ORegAnno) database as a dynamic collection of literature-curated regulatory regions, transcription factor binding sites and regulatory mutations (polymorphisms and haplotypes). ORegAnno has been designed to manage the submission, indexing and validation of new annotations from users worldwide. Submissions to ORegAnno are immediately cross-referenced to EnsEMBL, dbSNP, Entrez Gene, the NCBI Taxonomy database and PubMed, where appropriate.


BACKGROUND
ORegAnno is available directly through MySQL, Web services, and online at http://www.oreganno.org. All software is licensed under the Lesser GNU Public License (LGPL).
Montgomery
S B
SB
Canada's Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, BC, Canada V5Z 4E6.
Griffith
O L
OL
Sleumer
M C
MC
Bergman
C M
CM
Bilenky
M
M
Pleasance
E D
ED
Prychyna
Y
Y
Zhang
X
X
Jones
S J M
SJ
D001665:Binding Sites; D003628:Database Management Systems; D030541:Databases, Genetic; D004282:Documentation / Q000379:methods*; D005786:Gene Expression Regulation / Q000235:genetics; D014644:Genetic Variation / Q000235:genetics; D020407:Internet; D009323:Natural Language Processing; D010506:Periodicals as Topic; D011401:Promoter Regions, Genetic / Q000235:genetics*; D011485:Protein Binding; D014157:Transcription Factors / Q000235:genetics*
D014157:Transcription Factors