Evolutionary rates and patterns for human transcription factor binding sites derived from repetitive DNA
N Polavarapu, L Mariño-Ramírez, D Landsman… - BMC genomics, 2008 - Springer
Background The majority of human non-protein-coding DNA is made up of repetitive
sequences, mainly transposable elements (TEs). It is becoming increasingly apparent that …
sequences, mainly transposable elements (TEs). It is becoming increasingly apparent that …
An expansive human regulatory lexicon encoded in transcription factor footprints
Regulatory factor binding to genomic DNA protects the underlying sequence from cleavage
by DNase I, leaving nucleotide-resolution footprints. Using genomic DNase I footprinting …
by DNase I, leaving nucleotide-resolution footprints. Using genomic DNase I footprinting …
Genome-wide identification of conserved regulatory function in diverged sequences
L Taher, DM McGaughey, S Maragh, I Aneas… - Genome …, 2011 - genome.cshlp.org
Plasticity of gene regulatory encryption can permit DNA sequence divergence without loss of
function. Functional information is preserved through conservation of the composition of …
function. Functional information is preserved through conservation of the composition of …
Sequence and chromatin determinants of transcription factor binding and the establishment of cell type-specific binding patterns
D Srivastava, S Mahony - Biochimica et Biophysica Acta (BBA)-Gene …, 2020 - Elsevier
Transcription factors (TFs) selectively bind distinct sets of sites in different cell types. Such
cell type-specific binding specificity is expected to result from interplay between the TF's …
cell type-specific binding specificity is expected to result from interplay between the TF's …
Roadmap for regulation
A package of papers investigates the functional regulatory elements in genomes that have
been obtained from human tissue samples and cell lines. The implications of the project are …
been obtained from human tissue samples and cell lines. The implications of the project are …