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GenomicsChIP-Seq of ERalpha and RNA polymerase II defines genes differentially responding to ligands
We used ChIP-Seq to map ERalpha binding sites and to profile changes in RNA polymerase II (RNAPII) occupancy in MCF-7 cells in response to estradiol (E2), tamoxifen or fulvestrant. We identified 10,205 high confidence ERalpha binding sites in response to E2 of which 68% contained an estrogen respons...
ORGANISM(S): Homo sapiens 
2009-03-09 | E-GEOD-14664 | biostudies-arrayexpress
TranscriptomicsRNAPII CTD dataset
The C-terminal domain (CTD) of RNA polymerase II (RNAPII) is composed of heptapeptide repeats, which play a key regulatory role in gene expression. Using genetic interaction and mRNA expression analysis we found that truncating the CTD resulted in distinct changes to cellular function. Truncating th...
ORGANISM(S): Saccharomyces cerevisiae 
2013-09-13 | E-GEOD-43120 | biostudies-arrayexpress
GenomicsIntegrator complex regulates NELF-mediated RNA Polymerase II pause/release and processivity at coding genes [ChIP-seq]
RNAPII pausing/termination shortly after initiation is a hallmark of gene regulation. However, the molecular mechanisms involved are still to be uncovered. Here, we show that NELF interacts with Integrator complex subunits (INTScom) forming a stable complex with RNPII and Spt5. The interaction betwe...
ORGANISM(S): Homo sapiens 
2015-05-19 | E-GEOD-60584 | biostudies-arrayexpress
ProteomicspSer2-RNAPII interaction partners in MEF cells (label free)
Deregulation of RNA Polymerase II (RNAPII) by oncogenic signaling leads to collisions of RNAPII with DNA synthesis machinery (transcription-replication conflicts, TRCs). TRCs can result in DNA damage and underlie genomic instability in tumor cells. Here we provide evidence that elongating RNAPII pro...
ORGANISM(S): Mus musculus (Mouse) 
2023-07-31 | PXD037680 | Pride
Ap-ms Mef Mouse Pser2-rnapii 
GenomicsStriatal genes regulated by super-enhancers and displaying low paused RNAPII are preferentially down-regulated in Huntington’s disease [ChIP-seq]
Huntington neurodegenerative disease (HD) is associated with extensive down-regulation of neuronal genes. We show preferential down-regulation of super-enhancer-regulated neuronal function genes in the striatum of HD mice. Striatal super-enhancers display extensive H3K27 acetylation within gene bodi...
ORGANISM(S): Mus musculus 
2015-04-01 | E-GEOD-59570 | biostudies-arrayexpress
GenomicsGenome-wide profiling of PPAR?:RXR and RNA polymerase II
Genome-wide profiling of PPAR?:RXR and RNA polymerase II reveals temporal activation of distinct metabolic pathways in RXR dimer composition during adipogenesis. Chromatin immunoprecipitation combined with deep sequencing was performed to generate genome-wide maps of peroxisome prolifelator-activat...
ORGANISM(S): Mus musculus 
2008-12-10 | E-GEOD-13511 | biostudies-arrayexpress
ProteomicsRNA Polymerase II interactome in presence or absence of SCAF1 in U2OS-SCAF1-AID cells
Transcripts produced by RNA polymerase II (RNAPII) are fundamental for cellular responses to environmental changes. It is therefore no surprise that there exist multiple avenues for the regulation of this process. To explore the regulation mediated by RNAPII-interacting proteins, we used an siRNA-ba...
ORGANISM(S): Homo sapiens (Human) 
2024-12-20 | PXD054675 | Pride
Scaf1-depletion Interactome Rnapii 
TranscriptomicsCUT&Tag for RNAPII-Ser2p or RNAPII-Ser5p in DIS3-depleted cells
CUT&Tag was performed to identify the effect of DIS3 depletion on RNAPII in response to UV irradiation. DIS3-AID HCT116 cells were treated with either Auxin (for rapid depletion of DIS3) or DMSO (control) before irradiation with 8 J/m2 UVC. CUT&Tag was performed targeting RNAPII-Ser2p or RNAPII-Ser5...
ORGANISM(S): Homo sapiens 
2026-08-03 | E-MTAB-16280 | biostudies-arrayexpress
TranscriptomicsThe RPB2 flap loop of human RNA polymerase II is dispensable for transcription initiation and elongation.
Deletion of the flap loop in the Rp2 subunit of human RNAPII did not alter the ability of human RNAPII to initiate transcription or elongate the initiated transcripts in vivo and in vitro, and was also dispensable for elongation factor-mediated enhancement and inhibition of transcript elongation in ...
ORGANISM(S): Homo sapiens 
2011-06-24 | E-GEOD-29734 | biostudies-arrayexpress
TranscriptomicsGenome wide profiling of the RNAPII, γH2AX, H3K4Me1, H3K4M2 and H3K4Me3 in MLL2 F/F and FC/FC MEF cells
We investigated the RNAPII and γH2AX occupancy genome wide by ChIP-Seq in MLL2 F/F and FC/FC80 MEF cells. We found that a week after MLL2 excision (FC/FC cells), a group of genes present higher levels of γH2AX and RNAPII near the TSS, as compared to the control (F/F cells). H3K4Me1, H3K4M2 and H3...
ORGANISM(S): Mus musculus 
2016-04-13 | E-GEOD-73124 | biostudies-arrayexpress
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