General Information
| Description | IN-silico SEarch for Co-occurring Transcription factors |
| Homepage | http://bioinformatics.ibioba-mpsp-conicet.gov.ar/INSECT |
Publications
INSECT: IN-silico SEarch for Co-occurring Transcription factors
Motivation
: Transcriptional regulation occurs through the concerted actions of multiple transcription factors (TFs) that bind cooperatively to cis-regulatory modules (CRMs) of genes. These CRMs usually contain a variable number of transcription factor-binding sites (TFBSs) involved in related cellular and physiological processes. Chromatin immunoprecipitation followed by sequencing (ChIP-seq) has been effective in detecting TFBSs and nucleosome location to identify potential CRMs in genome-wide studies. Although several attempts were previously reported to predict the potential binding of TFs at TFBSs within CRMs by comparing different ChIP-seq data, these have been hampered by excessive background, usually emerging as a consequence of experimental conditions. To understand these complex regulatory circuits, it would be helpful to have reliable and updated user-friendly tools to assist in the identification of TFBSs and CRMs for gene(s) of interest.
Results
: Here we present INSECT (IN-silico SEarch for Co-occurring Transcription factors), a novel web server for identifying potential TFBSs and CRMs in gene sequences. By combining several strategies, INSECT provides flexible analysis of multiple co-occurring TFBSs, by applying differing search schemes and restriction parameters.
Availability and implementation
: INSECT is freely available as a web server at http://bioinformatics.ibioba-mpsp-conicet.gov.ar/INSECT
Contact:
cperezcastro@ibioba-mpsp-conicet.gov.ar or pyankilevich@ibioba-mpsp-conicet.gov.ar
Supplementary information:
Supplementary data are available at Bioinformatics online.
Related Tools
MotEvo
Published December 2011
Integrated Bayesian probabilistic methods for inferring regulatory sites and motifs on multiple alignments of DNA sequen...
SignalSpider
Published September 2014
Probabilistic pattern discovery on multiple normalized ChIP-Seq signal profiles
TFBSTools
Published January 2016
An R/bioconductor package for transcription factor binding site analysis
LedPred
Published December 2015
An R/bioconductor package to predict regulatory sequences using support vector machines
FAIR Evaluation
Sorry, you must be signed in to evaluate this object.
