Transcription factor (TF) binding specificities (motifs) are essential for the analysis of gene
regulation. Accurate prediction of TF motifs is critical, because it is infeasible to assay all TFs …

To the Editor: A sequence motif is a short recurring pattern with biological significance such
as a DNA-recognition sequence for a transcription factor (TF), an mRNA splicing signal, or a …

Variations in noncoding regulatory sequences play a central role in evolution. Interpreting
such variations, however, remains difficult even in the context of defined attributes such as …

To understand the evolutionary dynamics between transcription factor (TF) binding and
gene expression in mammals, we compared transcriptional output and the binding …

Transcription factor (TF) DNA sequence preferences direct their regulatory activity, but are
currently known for only∼ 1% of eukaryotic TFs. Broadly sampling DNA-binding domain …

Sequencing of exomes and genomes has revealed abundant genetic variation affecting the
coding sequences of human transcription factors (TFs), but the consequences of such …

Patterns of transcriptional activity are encoded in our genome through regulatory elements
such as promoters or enhancers that, paradoxically, contain similar assortments of …

Genomic analyses often involve scanning for potential transcription factor (TF) binding sites
using models of the sequence specificity of DNA binding proteins. Many approaches have …

Sequence-specific transcription factors (TFs) are important to genetic regulation in all
organisms because they recognize and directly bind to regulatory regions on DNA. Here, we …

Transcription factor (TF) proteins recognize a small number of DNA sequences with high
specificity and control the expression of neighbouring genes. The evolution of TF binding …