Similar studies for GEO DataSets (Select 200132705) - GEO DataSets

Select item 2001327051.

KAP1/TRIM28 maintains the transcriptional state of cancer cells

(Submitter supplied) We report the genome-wide effects of KAP1 loss on the transcriptome, the chromatin state, and on recruitment of various components of the transcription machinery in the colon colorectal cancer cell line HCT116.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other

Platform:: GPL18573
67 Samples

Download data: BW, TXT

Series

Accession:: GSE132705

ID:: 200132705

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Select item 2001679562.

HIF-1 Recruits TRIM28 and DNA-PK to Release Paused RNA Polymerase II and Activate Target Gene Transcription in Response to Hypoxia

(Submitter supplied) Hypoxia-inducible factor-1 (HIF-1) is a transcription factor that acts as a master regulator of O2 homeostasis in metazoan species by binding to hypoxia response elements (HREs) and activating the transcription of hundreds of genes in response to reduced O2 availability. RNA polymerase II (Pol II) initiates transcription of many HIF target genes under non-hypoxic conditions, but pauses after 20-100 nucleotides and requires HIF-1 binding for release. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
24 Samples

Download data: XLSX

Series

Accession:: GSE167956

ID:: 200167956

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Select item 2001069763.

KAP1 targets actively transcribed genomic loci to exert pleomorphic effects on RNA Polymerase II- and III-mediated expression

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:: GPL17021
21 Samples

Download data: BED

Series

Accession:: GSE106976

ID:: 200106976

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Select item 2001069754.

KAP1 targets actively transcribed genomic loci to exert pleomorphic effects on RNA Polymerase II- and III-mediated expression [RNA-Seq, small RNA-Seq]

(Submitter supplied) KAP1 (KRAB-associated protein 1) is best known as a co-repressor responsible for inducing heterochromatin formation notably at transposable elements. However, it has also been observed to bind the transcription start site of actively expressed genes. To address this paradox, we characterized the protein interactome of KAP1 in human embryonic stem cells and in the K562 erythro-leukemia cell line. We found that the regulator can associate with a wide range of nucleic acid binding proteins, nucleosome remodelers, chromatin modifiers and other transcription modulators. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:: GPL17021
8 Samples

Download data: TAB

Series

Accession:: GSE106975

ID:: 200106975

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Select item 2001069745.

KAP1 targets actively transcribed genomic loci to exert pleomorphic effects on RNA Polymerase II- and III-mediated expression [ChIP-Seq]

(Submitter supplied) KAP1 (KRAB-associated protein 1) is best known as a co-repressor responsible for inducing heterochromatin formation notably at transposable elements. However, it has also been observed to bind the transcription start site of actively expressed genes. To address this paradox, we characterized the protein interactome of KAP1 in human embryonic stem cells and in the K562 erythro-leukemia cell line. We found that the regulator can associate with a wide range of nucleic acid binding proteins, nucleosome remodelers, chromatin modifiers and other transcription modulators. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17021
13 Samples

Download data: BED

Series

Accession:: GSE106974

ID:: 200106974

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Select item 2000482536.

TRIM28 regulates RNA polymerase II promoter proximal pausing and entry into processive elongation

(Submitter supplied) Analysis of total PolII and Ser2-phosphorylated PolII genomic occupancy in control-transfected (WT) or Trim28-knockdown (Trim28-KD) embryonic stem cells.

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13112
12 Samples

Download data: BW

Series

Accession:: GSE48253

ID:: 200048253

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Select item 2001006147.

CBP regulates recruitment and release of promoter-proximal RNA polymerase II

(Submitter supplied) Transcription activation involves RNA polymerase II (Pol II) recruitment and release from the promoter into productive elongation, but how specific chromatin regulators control these steps is unclear. Here we identify a novel activity of the histone acetyltransferase p300/CBP in regulating promoter-proximal paused Pol II. We find that Drosophila CBP (nejire) inhibition impedes transcription through the +1 nucleosome leading to accumulation of Pol II at this position on all expressed genes. more...

Organism:: Drosophila melanogaster

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17275
12 Samples

Download data: SGR

Series

Accession:: GSE100614

ID:: 200100614

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Select item 2001006138.

Drosophila TFIIB ChIP-seq after CBP inhibition

(Submitter supplied) TFIIB chromatin binding is drastically reduced genome-wide after 10 min of CBP (also known as nejire) inhibition.

Organism:: Drosophila melanogaster

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17275
8 Samples

Download data: SGR

Series

Accession:: GSE100613

ID:: 200100613

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Select item 2001006129.

MNase-seq after CBP inhibition in Drosophila S2 cells

(Submitter supplied) Nucleosome position does not change after 10 min of CBP (also known as nejire) inhibition.

Organism:: Drosophila melanogaster

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17275
4 Samples

Download data: SGR

Series

Accession:: GSE100612

ID:: 200100612

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Select item 20008164910.

CBP regulates promoter-proximal RNA polymerase II

(Submitter supplied) Transcription activation involves RNA polymerase II (Pol II) recruitment and release from the promoter into productive elongation, but how specific chromatin regulators control these steps is not fully understood. Here we identify a novel activity of the co-regulator and histone acetyltransferase p300/CBP in positioning promoter-proximal paused Pol II. We find that CBP inhibition impedes transcription through the +1 nucleosome, causing “dribbling” of Pol II from the canonical pause site genome-wide. more...

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing; Other

Platform:: GPL19132
2 Samples

Download data: BIGWIG

Series

Accession:: GSE81649

ID:: 200081649

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Select item 20013069211.

The histone deacetylase SIRT6 restrains transcription elongation via promoter-proximal pausing

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing; Other; Expression profiling by high throughput sequencing

Platforms:: GPL17021 GPL19057
46 Samples

Download data: BW

Series

Accession:: GSE130692

ID:: 200130692

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Select item 20013069112.

The histone deacetylase SIRT6 controls transcription elongation via promoter-proximal pausing (PRO-Seq)

(Submitter supplied) Transcriptional regulation in eukaryotes commonly occurs at promoter-proximal regions wherein transcriptionally engaged RNA Polymerase II (Pol II) pauses before proceeding towards productive elongation. The roles of chromatin in this process remains poorly understood. Here, we demonstrate that the histone deacetylase SIRT6 regulates transcription elongation by binding to Pol II and anchoring the Negative ELongation Factor NELF, thereby preventing the release of Pol II towards elongation. more...

Organism:: Mus musculus

Type:: Other

Platform:: GPL19057
8 Samples

Download data: BW

Series

Accession:: GSE130691

ID:: 200130691

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Select item 20013069013.

The histone deacetylase SIRT6 controls transcription elongation via promoter- proximal pausing (RNA-Seq)

(Submitter supplied) Transcriptional regulation in eukaryotes commonly occurs at promoter-proximal regions wherein transcriptionally engaged RNA Polymerase II (Pol II) pauses before proceeding towards productive elongation. The roles of chromatin in this process remains poorly understood. Here, we demonstrate that the histone deacetylase SIRT6 regulates transcription elongation by binding to Pol II and anchoring the Negative ELongation Factor NELF, thereby preventing the release of Pol II towards elongation. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
9 Samples

Download data: TXT

Series

Accession:: GSE130690

ID:: 200130690

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Select item 20013068914.

The histone deacetylase SIRT6 controls transcription elongation via promoter- proximal pausing (ChIP-Seq)

(Submitter supplied) Transcriptional regulation in eukaryotes commonly occurs at promoter-proximal regions wherein transcriptionally engaged RNA Polymerase II (Pol II) pauses before proceeding towards productive elongation. The roles of chromatin in this process remains poorly understood. Here, we demonstrate that the histone deacetylase SIRT6 regulates transcription elongation by binding to Pol II and anchoring the Negative ELongation Factor NELF, thereby preventing the release of Pol II towards elongation. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17021
29 Samples

Download data: BW

Series

Accession:: GSE130689

ID:: 200130689

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Select item 20015332215.

JMJD5 couples with CDK9 to release the paused RNA polymerase II

(Submitter supplied) More than 30% of genes in higher eukaryotes are regulated by RNA Polymerase II (Pol II) promoter proximal pausing. Pausing is released by the positive transcription elongation factor complex (P-TEFb). However, the exact mechanism by which this occurs and whether phosphorylation of the carboxyl-terminal domain of Pol II is involved in the process remains unknown. We previously reported that JMJD5 could generate tailless nucleosomes at position +1 from transcription start sites (TSS) thus perhaps enable progression of Pol II. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17021
8 Samples

Download data: BW

Series

Accession:: GSE153322

ID:: 200153322

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Select item 20026669416.

KAP1 negatively regulates elongation kinetics to activate signal-induced transcription [TT-Seq]

(Submitter supplied) Signal-induced transcriptional programs regulate critical biological processes through the precise spatiotemporal activation of Immediate Early Genes (IEGs); however, the mechanisms of transcription induction are still unfolding. By combining an acute depletion system with high resolution genomics approaches to interrogate synchronized, temporal transcription, we reveal that KAP1/TRIM28 is a first responder that fulfills the temporal and heightened transcriptional demand of IEGs. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL30173
4 Samples

Download data: TXT

Series

Accession:: GSE266694

ID:: 200266694

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Select item 20026669317.

KAP1 negatively regulates elongation kinetics to activate signal-induced transcription [RNA-Seq]

(Submitter supplied) Signal-induced transcriptional programs regulate critical biological processes through the precise spatiotemporal activation of Immediate Early Genes (IEGs); however, the mechanisms of transcription induction are still unfolding. By combining an acute depletion system with high resolution genomics approaches to interrogate synchronized, temporal transcription, we reveal that KAP1/TRIM28 is a first responder that fulfills the temporal and heightened transcriptional demand of IEGs. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL30173
12 Samples

Download data: TXT

Series

Accession:: GSE266693

ID:: 200266693

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Select item 20026669218.

KAP1 negatively regulates elongation kinetics to activate signal-induced transcription [PRO-Seq]

(Submitter supplied) Signal-induced transcriptional programs regulate critical biological processes through the precise spatiotemporal activation of Immediate Early Genes (IEGs); however, the mechanisms of transcription induction are still unfolding. By combining an acute depletion system with high resolution genomics approaches to interrogate synchronized, temporal transcription, we reveal that KAP1/TRIM28 is a first responder that fulfills the temporal and heightened transcriptional demand of IEGs. more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL30173
12 Samples

Download data: BW

Series

Accession:: GSE266692

ID:: 200266692

PubMed Full text in PMC Similar studies

Select item 20026669119.

KAP1 negatively regulates elongation kinetics to activate signal-induced transcription [ChIP-Seq]

(Submitter supplied) Signal-induced transcriptional programs regulate critical biological processes through the precise spatiotemporal activation of Immediate Early Genes (IEGs); however, the mechanisms of transcription induction are still unfolding. By combining an acute depletion system with high resolution genomics approaches to interrogate synchronized, temporal transcription, we reveal that KAP1/TRIM28 is a first responder that fulfills the temporal and heightened transcriptional demand of IEGs. more...