Acute TNF-induced repression of cell identity genes is mediated by NFκB-directed redistribution of cofactors from super-enhancers
The proinflammatory cytokine tumor necrosis factor (TNF) plays a central role in low-grade
adipose tissue inflammation and development of insulin resistance during obesity. In this …
adipose tissue inflammation and development of insulin resistance during obesity. In this …
Binding of nuclear factor κB to noncanonical consensus sites reveals its multimodal role during the early inflammatory response
P Kolovos, T Georgomanolis, A Koeferle… - Genome …, 2016 - genome.cshlp.org
Mammalian cells have developed intricate mechanisms to interpret, integrate, and respond
to extracellular stimuli. For example, tumor necrosis factor (TNF) rapidly activates …
to extracellular stimuli. For example, tumor necrosis factor (TNF) rapidly activates …
Coactivation of GR and NFKB alters the repertoire of their binding sites and target genes
Glucocorticoid receptor (GR) exerts anti-inflammatory action in part by antagonizing
proinflammatory transcription factors such as the nuclear factor kappa-b (NFKB). Here, we …
proinflammatory transcription factors such as the nuclear factor kappa-b (NFKB). Here, we …
[PDF][PDF] The number of transcription factors at an enhancer determines switch-like gene expression
H Michida, H Imoto, H Shinohara, N Yumoto, M Seki… - Cell reports, 2020 - cell.com
NF-κB is a transcription factor that activates super enhancers (SEs) and typical enhancers
(TEs) and triggers threshold and graded gene expression, respectively. However, the …
(TEs) and triggers threshold and graded gene expression, respectively. However, the …
Nascent transcript analysis of glucocorticoid crosstalk with TNF defines primary and cooperative inflammatory repression
SK Sasse, M Gruca, MA Allen, V Kadiyala… - Genome …, 2019 - genome.cshlp.org
The glucocorticoid receptor (NR3C1, also known as GR) binds to specific DNA sequences
and directly induces transcription of anti-inflammatory genes that contribute to cytokine …
and directly induces transcription of anti-inflammatory genes that contribute to cytokine …
Clustered and diverse transcription factor binding underlies cell type specificity of enhancers for housekeeping genes
I Zhu, D Landsman - Genome Research, 2023 - genome.cshlp.org
Housekeeping genes are considered to be regulated by common enhancers across different
tissues. Here we report that most of the commonly expressed mouse or human genes across …
tissues. Here we report that most of the commonly expressed mouse or human genes across …
[HTML][HTML] Enhanced transcriptional heterogeneity mediated by NF-κB super-enhancers
JN Wibisana, T Inaba, H Shinohara, N Yumoto… - PLoS …, 2022 - journals.plos.org
The transcription factor NF-κB, which plays an important role in cell fate determination, is
involved in the activation of super-enhancers (SEs). However, the biological functions of the …
involved in the activation of super-enhancers (SEs). However, the biological functions of the …
Enhancer networks revealed by correlated DNAse hypersensitivity states of enhancers
J Malin, MR Aniba, S Hannenhalli - Nucleic acids research, 2013 - academic.oup.com
Mammalian gene expression is often regulated by distal enhancers. However, little is known
about higher order functional organization of enhancers. Using∼ 100 K P300-bound …
about higher order functional organization of enhancers. Using∼ 100 K P300-bound …
Computationally Identifying Novel NF-κB-Regulated Immune Genes in the Human Genome
R Liu, RC McEachin - Genome research, 2003 - genome.cshlp.org
Identifying novel NF-κB-regulated immune genes in the human genome is important to our
understanding of immune mechanisms and immune diseases. We fit logistic regression …
understanding of immune mechanisms and immune diseases. We fit logistic regression …
Inferring genome-wide functional modulatory network: a case study on NF-κB/RelA transcription factor
How different pathways lead to the activation of a specific transcription factor (TF) with
specific effects is not fully understood. We model context-specific transcriptional regulation …
specific effects is not fully understood. We model context-specific transcriptional regulation …