Position specific scoring matrices for TFs, version 4.0

Description of the dataset:

PSSMs are built using the annotated binding sites of TFs from RegulonDB version 10.5.2. A matrix is built for all TFs with four or more annotated sites. Each matrix is shown with theoretical and empirical quality assessment.

Citation:

Dataset provided and maintained by RegulonDB (PUBMED: #21051347) from the original source published in: Medina-Rivera et al. Theoretical and empirical quality assessment of transcription factor-binding motifs. Nucleic Acids Research (2011) vol. 39 (3) pp. 808-824 (PubMed: 20923783)

Tutorial:

Details of the evaluation process of the RegulonDB matrices can be download from this PDF.

Transcription Factor Thresholds:

The text file contains the selection of the threshold, it is decided using the score distribution matrix and was done using the separation between the empirical and theoretical distribution.