ArticleMolecular systems biology2017
TT-seq captures enhancer landscapes immediately after T-cell stimulation.
Article in Molecular systems biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed.
- Profiling Nascent RNA Transcription with TT-Seq.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Nucleotide resolution 4-thiouridine sequencing by SNU-Seq and sf4sU-Seq reveals the transcriptional responsiveness of an epigenetically primed human genome.Nucleic acids research · 2026Article
- Role of eRNAs in Cardiovascular Diseases.Current cardiology reviews · 2026Review
- Transcriptional pause release at enhancers mediates cell identity.NAR cancer · 2025Review
- U1 snRNP regulates alternative promoter activity by inhibiting premature polyadenylation.Molecular cell · 2025Article
- A transcription coupling model for how enhancers communicate with their target genes.Nature structural & molecular biology · 2025Review
- PRC2-EZH1 contributes to circadian gene expression by orchestrating chromatin states and RNA polymerase II complex stability.The EMBO journal · 2024Article
- Tox4 regulates transcriptional elongation and reinitiation during murine T cell development.Communications biology · 2023Article
- Enhancer-promoter entanglement explains their transcriptional interdependence.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Building integrative functional maps of gene regulation.Human molecular genetics · 2022Article
- Oct4 differentially regulates chromatin opening and enhancer transcription in pluripotent stem cells.eLife · 2022Article
- Multiple sclerosis genetic and non-genetic factors interact through the transient transcriptome.Scientific reports · 2022Article
- Review
- TOX4 facilitates promoter-proximal pausing and C-terminal domain dephosphorylation of RNA polymerase II in human cells.Communications biology · 2022Article
- Decoding Human Genome Regulatory Features That Influence HIV-1 Proviral Expression and Fate Through an Integrated Genomics Approach.Bioinformatics and biology insights · 2022Article
- Distinct transcription kinetics of pluripotent cell states.Molecular systems biology · 2022Article
- Transcription activation depends on the length of the RNA polymerase II C-terminal domain.The EMBO journal · 2021Article
- Evidence for additive and synergistic action of mammalian enhancers during cell fate determination.eLife · 2021Article
- Spirits in the Material World: Enhancer RNAs in Transcriptional Regulation.Trends in biochemical sciences · 2021Review
- Transcriptionally active enhancers in human cancer cells.Molecular systems biology · 2021Article
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Authors and funding
8 authors.
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No grant is acknowledged in the PubMed record.
Abstract
To monitor transcriptional regulation in human cells, rapid changes in enhancer and promoter activity must be captured with high sensitivity and temporal resolution. Here, we show that the recently established protocol TT-seq ("transient transcriptome sequencing") can monitor rapid changes in transcription from enhancers and promoters during the immediate response of T cells to ionomycin and phorbol 12-myristate 13-acetate (PMA). TT-seq maps eRNAs and mRNAs every 5 min after T-cell stimulation with high sensitivity and identifies many new primary response genes. TT-seq reveals that the synthesis of 1,601 eRNAs and 650 mRNAs changes significantly within only 15 min after stimulation, when standard RNA-seq does not detect differentially expressed genes. Transcription of enhancers that are primed for activation by nucleosome depletion can occur immediately and simultaneously with transcription of target gene promoters. Our results indicate that enhancer transcription is a good proxy for enhancer regulatory activity in target gene activation, and establish TT-seq as a tool for monitoring the dynamics of enhancer landscapes and transcription programs during cellular responses and differentiation.
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