Novel computational analysis of protein binding array data identifies direct targets of Nkx2.2 in the pancreas.

ABSTRACT:

Background

The creation of a complete genome-wide map of transcription factor binding sites is essential for understanding gene regulatory networks in vivo. However, current prediction methods generally rely on statistical models that imperfectly model transcription factor binding. Generation of new prediction methods that are based on protein binding data, but do not rely on these models may improve prediction sensitivity and specificity.

Results

We propose a method for predicting transcription factor binding sites in the genome by directly mapping data generated from protein binding microarrays (PBM) to the genome and calculating a moving average of several overlapping octamers. Using this unique algorithm, we predicted binding sites for the essential pancreatic islet tran

SUBMITTER: Hill JT 

PROVIDER: S-EPMC3050729 | biostudies-literature | 2011 Feb

REPOSITORIES: biostudies-literature