JASPAR 2022: the 9th release of the open-access database of transcription factor binding profiles

JA Castro-Mondragon, R Riudavets-Puig… - Nucleic acids …, 2022 - academic.oup.com
Abstract JASPAR (http://jaspar. genereg. net/) is an open-access database containing
manually curated, non-redundant transcription factor (TF) binding profiles for TFs across six …

JASPAR 2020: update of the open-access database of transcription factor binding profiles

O Fornes, JA Castro-Mondragon, A Khan… - Nucleic acids …, 2020 - academic.oup.com
Abstract JASPAR (http://jaspar. genereg. net) is an open-access database of curated, non-
redundant transcription factor (TF)-binding profiles stored as position frequency matrices …

A stromal Integrated Stress Response activates perivascular cancer-associated fibroblasts to drive angiogenesis and tumour progression

II Verginadis, H Avgousti, J Monslow, G Skoufos… - Nature cell …, 2022 - nature.com
Bidirectional signalling between the tumour and stroma shapes tumour aggressiveness and
metastasis. ATF4 is a major effector of the Integrated Stress Response, a homeostatic …

PHOSPHATE STARVATION RESPONSE transcription factors enable arbuscular mycorrhiza symbiosis

D Das, M Paries, K Hobecker, M Gigl, C Dawid… - Nature …, 2022 - nature.com
Arbuscular mycorrhiza (AM) is a widespread symbiosis between roots of the majority of land
plants and Glomeromycotina fungi. AM is important for ecosystem health and functioning as …

RegulonDB 11.0: Comprehensive high-throughput datasets on transcriptional regulation in Escherichia coli K-12

VH Tierrafría, C Rioualen, H Salgado… - Microbial …, 2022 - microbiologyresearch.org
Genomics has set the basis for a variety of methodologies that produce high-throughput
datasets identifying the different players that define gene regulation, particularly regulation …

RegulonDB v 10.5: tackling challenges to unify classic and high throughput knowledge of gene regulation in E. coli K-12

A Santos-Zavaleta, H Salgado… - Nucleic acids …, 2019 - academic.oup.com
RegulonDB, first published 20 years ago, is a comprehensive electronic resource about
regulation of transcription initiation of Escherichia coli K-12 with decades of knowledge from …

Human transcription factor protein interaction networks

H Göös, M Kinnunen, K Salokas, Z Tan, X Liu… - Nature …, 2022 - nature.com
Transcription factors (TFs) interact with several other proteins in the process of
transcriptional regulation. Here, we identify 6703 and 1536 protein–protein interactions for …

Acute BAF perturbation causes immediate changes in chromatin accessibility

S Schick, S Grosche, KE Kohl, D Drpic, MG Jaeger… - Nature …, 2021 - nature.com
Abstract Cancer-associated, loss-of-function mutations in genes encoding subunits of the
BRG1/BRM-associated factor (BAF) chromatin-remodeling complexes,,,,,,–often cause …

RSAT 2022: regulatory sequence analysis tools

W Santana-Garcia, JA Castro-Mondragon… - Nucleic Acids …, 2022 - academic.oup.com
Abstract RSAT (Regulatory Sequence Analysis Tools) enables the detection and the
analysis of cis-regulatory elements in genomic sequences. This software suite performs (i) …

[HTML][HTML] Opposing functions of BRD4 isoforms in breast cancer

SY Wu, CF Lee, HT Lai, CT Yu, JE Lee, H Zuo, SY Tsai… - Molecular cell, 2020 - cell.com
Summary Bromodomain-containing protein 4 (BRD4) is a cancer therapeutic target in
ongoing clinical trials disrupting primarily BRD4-regulated transcription programs. The role …