General Information
| Description | An integrated framework for transcription factor binding site analysis |
| Homepage | https://github.com/Danko-Lab/rtfbs_db |
Publications
RTFBSDB: an integrated framework for transcription factor binding site analysis
Summary:
Transcription factors (TFs) regulate complex programs of gene transcription by binding to short DNA sequence motifs. Here, we introduce rtfbsdb, a unified framework that integrates a database of more than 65 000 TF binding motifs with tools to easily and efficiently scan target genome sequences. Rtfbsdb clusters motifs with similar DNA sequence specificities and integrates RNA-seq or PRO-seq data to restrict analyses to motifs recognized by TFs expressed in the cell type of interest. Our package allows common analyses to be performed rapidly in an integrated environment.
Availability and Implementation:
rtfbsdb available at (https://github.com/Danko-Lab/rtfbs_db).
Contact:
dankoc@gmail.com
Supplementary information:
Supplementary data are available at Bioinformatics online.
Related Tools
coMOTIF
Published July 2011
A mixture framework for identifying transcription factor and a coregulator motif in ChIP-seq Data
GRiP
Published March 2012
A computational tool to simulate transcription factor binding in prokaryotes
footprintDB
Published November 2013
A database of transcription factors with annotated cis elements and binding interfaces
FAIR Evaluation
Sorry, you must be signed in to evaluate this object.
