G-quadruplexes are transcription factor binding hubs in human chromatin
نویسندگان
چکیده
منابع مشابه
Calculating transcription factor binding maps for chromatin
Current high-throughput experiments already generate enough data for retrieving the DNA sequence-dependent binding affinities of transcription factors (TF) and other chromosomal proteins throughout the complete genome. However, the reverse task of calculating binding maps in a chromatin context for a given set of concentrations and TF affinities appears to be even more challenging and computati...
متن کاملThermodynamic fingerprints of ligand binding to human telomeric G-quadruplexes
Thermodynamic studies of ligand binding to human telomere (ht) DNA quadruplexes, as a rule, neglect the involvement of various ht-DNA conformations in the binding process. Therefore, the thermodynamic driving forces and the mechanisms of ht-DNA G-quadruplex-ligand recognition remain poorly understood. In this work we characterize thermodynamically and structurally binding of netropsin (Net), di...
متن کاملDifferential chromatin profiles partially determine transcription factor binding
We characterize how genomic variants that alter chromatin accessibility influence regulatory factor binding with a new method called DeltaBind that predicts condition specific factor binding more accurately than other methods based on DNase-seq data. Using DeltaBind and DNase-seq experiments we predicted the differential binding of 18 factors in K562 and GM12878 cells with an average precision ...
متن کاملIntestinal master transcription factor CDX2 controls chromatin access for partner transcription factor binding.
Tissue-specific gene expression requires modulation of nucleosomes, allowing transcription factors to occupy cis elements that are accessible only in selected tissues. Master transcription factors control cell-specific genes and define cellular identities, but it is unclear if they possess special abilities to regulate cell-specific chromatin and if such abilities might underlie lineage determi...
متن کاملIntestinal Master Transcription Factor Cdx2 Controls Chromatin 1 Access for Partner Transcription Factor Binding 2 3
1 Intestinal master transcription factor CDX2 controls chromatin 1 access for partner transcription factor binding 2 3 Michael P. Verzi*, Hyunjin Shin*, Adrianna K. San Roman, 4 X. Shirley Liu, and Ramesh A. Shivdasani 5 6 7 Department of Medical Oncology and Department of Biostatistics and Computational Biology, 8 Dana-Farber Cancer Institute, Boston, MA 02215 (USA); Departments of Medicine, B...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Genome Biology
سال: 2021
ISSN: 1474-760X
DOI: 10.1186/s13059-021-02324-z