ArticleNucleic acids research2008
Chromatin profiling across the human tumour necrosis factor gene locus reveals a complex, cell type-specific landscape with novel regulatory elements.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
17 citing papers in PubMed, 28 citations in OpenAlex.
- Role of PRDM1 in natural killer cells.Molecular biology reports · 2026Review
- Targeting eRNA-Producing Super-Enhancers Regulates TNFα Expression and Mitigates Chronic Inflammation in Mice and Patient-Derived Immune Cells.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Article
- Multiple selective sweeps of ancient polymorphisms in and around LTα located in the MHC class III region on chromosome 6.BMC evolutionary biology · 2019Article
- Environment Changes Genetic Effects on Respiratory Conditions and Allergic Phenotypes.Scientific reports · 2017Article
- Priming of transcriptional memory responses via the chromatin accessibility landscape in T cells.Scientific reports · 2017Article
- Transcriptome Analysis of the Sydney Rock Oyster, Saccostrea glomerata: Insights into Molluscan Immunity.PloS one · 2016Article
- A distal locus element mediates IFN-γ priming of lipopolysaccharide-stimulated TNF gene expression.Cell reports · 2014Article
- A stimulation-dependent alternate core promoter links lymphotoxin α expression with TGF-β1 and fibroblast growth factor-7 signaling in primary human T cells.Journal of immunology (Baltimore, Md. : 1950) · 2013Article
- Epigenetic control of cytokine gene expression: regulation of the TNF/LT locus and T helper cell differentiation.Advances in immunology · 2013Review
- Tumor necrosis factor polymorphisms associated with tumor necrosis factor production influence the risk of idiopathic intermediate uveitis.Molecular vision · 2013Article
- Higher-order chromatin regulation and differential gene expression in the human tumor necrosis factor/lymphotoxin locus in hepatocellular carcinoma cells.Molecular and cellular biology · 2012Article
- Article
- Transcriptional repression and DNA looping associated with a novel regulatory element in the final exon of the lymphotoxin-β gene.Genes and immunity · 2011Article
- PRDM1/Blimp-1 controls effector cytokine production in human NK cells.Journal of immunology (Baltimore, Md. : 1950) · 2010Article
- Transcriptional control of the TNF gene.Current directions in autoimmunity · 2010Review
- The human Major Histocompatibility Complex as a paradigm in genomics research.Briefings in functional genomics & proteomics · 2009Review
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
Abstract
The TNF locus on chromosome 6p21 encodes a family of proteins with key roles in the immune response whose dysregulation leads to severe disease. Transcriptional regulation is important, with cell type and stimulus-specific enhancer complexes involving the proximal TNF promoter. We show how quantitative chromatin profiling across a 34 kb region spanning the TNF locus has allowed us to identify a number of novel DNase hypersensitive sites and characterize more distant regulatory elements. We demonstrate DNase hypersensitive sites corresponding to the lymphotoxin alpha (LTA) and tumour necrosis factor (TNF) promoter regions, a CpG island in exon 4 of lymphotoxin beta (LTB), the 3' end of nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 1 (NFKBIL1) and 3.4 kb upstream of LTA. These sites co-localize to highly conserved DNA sequences and show evidence of cell type specificity when lymphoblastoid, Jurkat, U937, HeLa and HEK293T cell lines are analysed using Southern blotting. For Jurkat T cells, we define histone modifications across the locus. Peaks of acetylated histone H3 and H4, together with tri-methyl K4 of histone H3, correspond to hypersensitive sites, notably in exon 4 of LTB. We provide evidence of a functional role for an intergenic DNase I hypersensitive site distal to LTA in Jurkat cells based on reporter gene analysis, with evidence of recruitment of upstream stimulatory factors (USF) transcription factors.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.