Similar studies for GEO DataSets (Select 200046630) - GEO DataSets

(Submitter supplied) Microarray analysis of gene expression profiles in control and M1BP-depleted Drosophila S2R+ cells. The results of this analyses are reported in Li, J. and D.S. Gilmour (2013) The newly identified transcription factor M1BP ad GAGA factor orchestrate distinct mechanisms of transcriptional regulation on paused genes. The EMBO J, in press.

Organism:: Drosophila melanogaster

Type:: Expression profiling by array

Platform:: GPL13782
8 Samples

Download data: PAIR

Series

Accession:: GSE46629

ID:: 200046629

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000589574.

GAGA Factor maintains promoters in nucleosome-free conformation and allows promoter-proximal pausing

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

Organism:: Drosophila melanogaster

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

Platforms:: GPL17275 GPL9058
18 Samples

Download data: BEDGRAPH

Series

Accession:: GSE58957

ID:: 200058957

PubMed Full text in PMC Similar studies

Select item 2000589565.

GAGA Factor maintains promoters in nucleosome-free conformation and allows promoter-proximal pausing [MNase]

(Submitter supplied) Promoter-proximal pausing of RNA polymerase II (Pol II) is a widespread in higher eukaryotes. Previous studies have shown that GAF is enriched at paused genes, but the role of GAF in pausing has not been well characterized on a genome-wide level. To investigate the role of GAF in pausing, we RNAi-depleted GAF from Drosophila S2 cells, and examined the effects on promoter-proximal polymerase. We confirmed the importance of GAF for pausing on the classic pause model gene Hsp70. more...

Organism:: Drosophila melanogaster

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

Platform:: GPL17275
12 Samples

Download data: BEDGRAPH

Series

Accession:: GSE58956

ID:: 200058956

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000589556.

GAGA Factor maintains promoters in nucleosome-free conformation and allows promoter-proximal pausing [GRO-seq]

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing

Platform:: GPL9058
6 Samples

Download data: BEDGRAPH

Series

Accession:: GSE58955

ID:: 200058955

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000406467.

The Genomic Binding Profile of GAGA Element Associated Factor (GAF) in Drosophila S2 cells

(Submitter supplied) GAGA associated transcription factor (GAF) is a highly abundant and essential protein in Drosophila. GAF recognizes and binds arrays of GA dinucleotides via a zinc finger DNA binding domain to regulate transcription by binding to general TF machinery or recruit nucleosome remodeling factors. We performed GAF ChIP-seq to quantify the intensity of GAF binding at high resolution in S2 cells. In addition, we performed GAF ChIP-seq in S2 cells that were depleted of GAF by RNAi. more...

Organism:: Drosophila melanogaster

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

Platform:: GPL13304
2 Samples

Download data: BED, TXT, WIG

Series

Accession:: GSE40646

ID:: 200040646

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001015578.

Expression of Hox transcription factors in Drosophila S2 cells

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

Organism:: Drosophila melanogaster

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

Platforms:: GPL13304 GPL21306
42 Samples

Download data: TXT

Series

Accession:: GSE101557

ID:: 200101557

PubMed Full text in PMC Similar studies

Select item 2001015569.

Genomic binding profiling upon expression of Ubx in S2 cells

(Submitter supplied) We sought to determine the genomic binding profile of the Drosophila Hox protein Ubx in a homogenous cell system. S2-DRSC cells that have no Hox expression were stably transfected with HA-tagged Ubx under the control of a metallothionein promoter. Upon Ubx expression, we identified high enrichment of Ubx at a large number transcription start sites that colocalises with the GAGA and M1BP.

Organism:: Drosophila melanogaster

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

Platform:: GPL13304
3 Samples

Download data: BED

Series

Accession:: GSE101556

ID:: 200101556

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010155510.

Gene expression profiling of S2 cells and S2 cells expressing AbdA

(Submitter supplied) We sought to determine the genes regulated by the Drosophila Hox protein AbdA in a homogenous cell system. S2-DRSC cells that have no Hox expression were stably transfected with HA-tagged AbdA under the control of a metallothionein promoter.

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13304
6 Samples

Download data: TXT, XLS

Series

Accession:: GSE101555

ID:: 200101555

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010155411.

Genomic binding profiling upon expression of AbdA in S2 cells

(Submitter supplied) We sought to determine the genomic binding profile of the Drosophila Hox protein AbdA in a homogenous cell system. S2-DRSC cells that have no Hox expression were stably transfected with HA-tagged AbdA under the control of a metallothionein promoter. Upon AbdA expression, we identified high enrichment of AbdA at a large number transcription start sites that colocalises with the GAGA and M1BP. Genes targeted by GAGA and M1BP contain paused RNA polymerase II and show enrichment of PcG proteins. more...

Organism:: Drosophila melanogaster

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

Platforms:: GPL13304 GPL21306
33 Samples

Download data: BED, BIGWIG

Series

Accession:: GSE101554

ID:: 200101554

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010061412.

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

PubMed Full text in PMC Similar studies

Select item 20010061313.

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

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010061214.

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

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20008164915.

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

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20004662016.

Permanganate ChIP-seq analysis of Pol II in nonheat shocked and heat shocked Drosophila S2R+ cells and nonheat shocked BG3 cells

(Submitter supplied) The genomic distribution of transcriptionally engaged Pol II in control and heat shocked cells was determined by combining formaldehyde crosslinking and permanganate oxidation of transcription bubbles

Organism:: Drosophila melanogaster

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

Platform:: GPL9521
3 Samples

Download data: TXT

Series

Accession:: GSE46620

ID:: 200046620

PubMed Full text in PMC Similar studies

Select item 20007760717.

Transcription factors GAF and HSF act at distinct regulatory steps to modulate stress-induced gene activation

(Submitter supplied) The coordinated regulation of gene expression at the transcriptional level is fundamental to development and homeostasis. Inducible systems are invaluable when studying transcription because the regulatory process can be triggered instantaneously, allowing the tracking of ordered mechanistic events. Here, we use precision run-on sequencing (PRO-seq) to examine the genome-wide heat shock (HS) response in Drosophila and the function of two key transcription factors on the immediate transcription activation or repression of all genes regulated by HS. more...

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL13304 GPL19132 GPL17275
18 Samples

Download data: BEDGRAPH, TXT

Series

Accession:: GSE77607

ID:: 200077607

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20007063418.

GAGA factor, a positive regulator of global gene expression, modulates transcriptional pausing and organization of upstream nucleosomes.

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

Organism:: Drosophila melanogaster

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

Platform:: GPL9058
7 Samples

Download data: TXT

Series

Accession:: GSE70634

ID:: 200070634

PubMed Full text in PMC Similar studies

Select item 20007063319.

GAGA factor, a positive regulator of global gene expression, modulates transcriptional pausing and organization of upstream nucleosomes. [MNase-seq]

(Submitter supplied) Promoter-proximal pausing of RNA polymerase II (RNA-Pol) is a rate-limiting step primed for rapid and synchronous induction of genes involved in critical physiological processes. Its underlying mechanisms are not fully understood. Using cytogenetic, genomic and genetic approaches, we provide evidence to support a direct role of a prevalent upstream GAGA binding factor (GAF) in transcriptional pausing of Hsp70 and many developmental regulators in Drosophila. more...