ArticleThe EMBO journal2012
TNFα signals through specialized factories where responsive coding and miRNA genes are transcribed.
Article in The EMBO journal, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 93 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
93 citing papers in PubMed, 143 citations in OpenAlex.
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- On the molecular basis of enduring memory in neurons, and cell fate in fibroblasts.Nucleic acids research · 2026Review
- Prediction and functional interpretation of inter-chromosomal genome architecture from DNA sequence with TwinC.Nature communications · 2026Article
- Two distinct chromatin modules regulate proinflammatory gene expression.Nature cell biology · 2026Article
- RNA polymerase II transcription compartments - from factories to condensates.Nature reviews. Genetics · 2025Review
- Prediction and functional interpretation of inter-chromosomal genome architecture from DNA sequence with TwinC.bioRxiv : the preprint server for biology · 2025Article
- Phytochemical synergies in BK002: advanced molecular docking insights for targeted prostate cancer therapy.Frontiers in pharmacology · 2025Review
- Systematic identification of interchromosomal interaction networks supports the existence of specialized RNA factories.Genome research · 2024Article
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- Heat Shock Factor 1 forms nuclear condensates and restructures the yeast genome before activating target genes.bioRxiv : the preprint server for biology · 2024Article
- Transcriptional changes are tightly coupled to chromatin reorganization during cellular aging.Aging cell · 2024Article
- Gene-to-gene coordinated regulation of transcription and alternative splicing by 3D chromatin remodeling upon NF-κB activation.Nucleic acids research · 2024Article
- Adhesome Receptor Clustering is Accompanied by the Colocalization of the Associated Genes in the Cell Nucleus.bioRxiv : the preprint server for biology · 2023Article
- Competition between transcription and loop extrusion modulates promoter and enhancer dynamics.Research square · 2023Article
- Competition between transcription and loop extrusion modulates promoter and enhancer dynamics.bioRxiv : the preprint server for biology · 2023Article
- Dynamic coalescence of yeast Heat Shock Protein genes bypasses the requirement for actin.Genetics · 2023Article
- Three-dimensional genome organization in immune cell fate and function.Nature reviews. Immunology · 2023Review
- Episomes and Transposases-Utilities to Maintain Transgene Expression from Nonviral Vectors.Genes · 2022Review
33 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
18 authors at 6 institutions in 4 countries.
Funding
Abstract
Tumour necrosis factor alpha (TNFα) is a potent cytokine that signals through nuclear factor kappa B (NFκB) to activate a subset of human genes. It is usually assumed that this involves RNA polymerases transcribing responsive genes wherever they might be in the nucleus. Using primary human endothelial cells, variants of chromosome conformation capture (including 4C and chromatin interaction analysis with paired-end tag sequencing), and fluorescence in situ hybridization to detect single nascent transcripts, we show that TNFα induces responsive genes to congregate in discrete 'NFκB factories'. Some factories further specialize in transcribing responsive genes encoding micro-RNAs that target downregulated mRNAs. We expect all signalling pathways to contain this extra leg, where responding genes are transcribed in analogous specialized factories.
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Registered trials
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.