Spatial distribution of predicted transcription factor binding sites in Drosophila ChIP peaks.

ABSTRACT: In the development of the Drosophila embryo, gene expression is directed by the sequence-specific interactions of a large network of protein transcription factors (TFs) and DNA cis-regulatory binding sites. Once the identity of the typically 8-10bp binding sites for any given TF has been determined by one of several experimental procedures, the sequences can be represented in a position weight matrix (PWM) and used to predict the location of additional TF binding sites elsewhere in the genome. Often, alignments of large (>200bp) genomic fragments that have been experimentally determined to bind the TF of interest in Chromatin Immunoprecipitation (ChIP) studies are trimmed under the assumption that the majority of the binding sites are located near the center of all the aligned fragments. I

SUBMITTER: Pettie KP 

PROVIDER: S-EPMC5441388 | biostudies-literature | 2016 Aug

REPOSITORIES: biostudies-literature