Large-scale computational identification of regulatory SNPs with rSNP-MAPPER.

ABSTRACT:

Background

The computational analysis of regulatory SNPs (rSNPs) is an essential step in the elucidation of the structure and function of regulatory networks at the cellular level. In this work we focus in particular on SNPs that potentially affect a Transcription Factor Binding Site (TFBS) to a significant extent, possibly resulting in changes to gene expression patterns or alternative splicing. The application described here is based on the MAPPER platform, a previously developed web-based system for the computational detection of TFBSs in DNA sequences.

Methods

rSNP-MAPPER is a computational tool that analyzes SNPs lying within predicted TFBSs and determines whether the allele substitution results in a significant change in the TFBS predictive score. The application's sim

SUBMITTER: Riva A 

PROVIDER: S-EPMC3303742 | biostudies-literature | 2012 Jun

REPOSITORIES: biostudies-literature