Similar studies for GEO DataSets (Select 200130383) - GEO DataSets

(Submitter supplied) Here, we systemically investigated the GPS2 corepressor complex function on cyclooxygenase 1 (Ptgs1) in macrophage M2 activation. We found the inflammatory states changed the DNA topology structure along with the histone modification and the gene expression on Ptgs1 locus. GPS2 related NCOR/SMRT corepressor physically bound to Ptgs1 promoter and enhancer, and depletion of all corepressor subunits caused the basal overexpression of Ptgs1 along with the H3K27ac activation. more...

Organism:: Mus musculus

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

4 related Platforms
203 Samples

Download data: BEDGRAPH, TXT, XLSX

Series

Accession:: GSE184884

ID:: 200184884

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000668744.

Expression data of the BMDMs from GPS2 WT and MKO mice

(Submitter supplied) Obesity is a major risk factor for metabolic disorders like insulin resistance and diabetes. We previously identified GPS2 as a clinical relavant repressor of metaflammation. No animal KO models were used to study its physiological function in vivo. The role of GPS2 in macrophage activation and inflammation is also largely unknown. Here we developed a GPS2 myeloid specific KO mice to study the regulation of GPS2 in macrophage inflammation. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL11533
6 Samples

Download data: CEL

Series

Accession:: GSE66874

ID:: 200066874

Select item 2000667745.

GPS2 cistrome analysis in BMDMs and RAW264.7 cells and epigenome comparison between WT and GPS2-knockout BMDMs.

(Submitter supplied) GPS2 binding sites in BMDMs can be localized specially in enhancers (H3K27ac) and promoters (H3K27ac, H3K4me3). Upon GPS2 knock-out in BMDMs, de-repression of certain inflammatory genes occur, as accompanied by increased recruitment of H3K27ac and H3K4me3 marks.

Organism:: Mus musculus

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

Platform:: GPL13112
15 Samples

Download data: TXT

Series

Accession:: GSE66774

ID:: 200066774

PubMed Similar studies SRA Run Selector

Select item 2001525176.

Loss of G protein pathway suppressor 2 in human adipocytes triggers lipid remodeling through upregulation of ATP binding cassette subfamily G member 1

(Submitter supplied) Here we demonstrate that the loss of GPS2 triggers the reprogramming of cellular processes related to adipocyte differentiation by increasing the responses to the adipogenic cocktail. Moreover, GPS2-depleted human adipocytes are characterized by hypertrophy, triglyceride and phospholipid accumulation, and sphingomyelin depletion. These changes are likely a consequence of the increased expression of ATP-Binding cassette subfamily G member 1 (ABCG1) that mediates sphingomyelin efflux from adipocytes and modulates lipoprotein lipase (LPL) activity. more...

Organism:: Homo sapiens

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

Platforms:: GPL21697 GPL11154
60 Samples

Download data: BEDGRAPH, TXT

Series

Accession:: GSE152517

ID:: 200152517

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2001085887.

GR and LSD1/KDM1A-targeted gene activation requires selective H3K4me2 demethylation at enhancers

(Submitter supplied) KDM1A-mediated H3K4 demethylation is a well-established mechanism underlying transcriptional gene repression, but its role in gene activation is less clear. Here we report a critical function and novel mechanism of action of KDM1A in glucocorticoid receptor (GR)-mediated gene transcription. Biochemical purification of the nuclear GR complex revealed KDM1A as an integral component. In cell-free assays, GR modulates KDM1A-catalyzed H3K4 progressive demethylation by limiting loss of H3K4me1. more...

Organism:: Homo sapiens

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

Platforms:: GPL20795 GPL16791
40 Samples

Download data: BEDGRAPH, CSV

Series

Accession:: GSE108588

ID:: 200108588

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2001570408.

Cis-acting lnc-eRNA SEELA1/2 in leukemia progression

(Submitter supplied) Long non-coding enhancer RNAs (lnc-eRNAs) are a subset of stable eRNAs identified from the annotated lncRNAs. They might serve as enhancer activity-related therapeutic targets in cancer; however, the epigenetic activation mechanisms and the function of lnc-eRNAs in cancer initiation and progression remain largely unknown.Here, by genome-wide screening we firstly identified a set of lncRNAs as lnc-eRNAs according to the epigenetic signatures of enhancers.To demonstrate the functional roles of lnc-eRNAs, two newly identified lnc-eRNAs, SEELA1 and SEELA2, were chosen for further studies.Further studies showed that SEELA1/2-SERINC2 axis regulated cancer metabolism, such as sphingolipid synthesis, to affect the leukemia progression.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
9 Samples

Download data: XLSX

Series

Accession:: GSE157040

ID:: 200157040

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2001505899.

ATAC-seq datasets for chromatin accessibility quantification in "Enhancer RNAs predict enhancer-gene regulatory links and are critical for enhancer function in neuronal systems"

(Submitter supplied) This dataset contains Assay for Transposase-Accessible Chromatin (ATAC) sequencing results from rat embryonic cortical, hippocampal, and striatal neuronal cultures treated with either vehicle (complete Neurobasal media) or potassium chloride (10mM) for 1hr.

Organism:: Rattus norvegicus

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

Platform:: GPL20084
18 Samples

Download data: BED

Series

Accession:: GSE150589

ID:: 200150589

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20015049910.

RNA-seq datasets for enhancer RNA quantification in "Enhancer RNAs predict enhancer-gene regulatory links and are critical for enhancer function in neuronal systems"

(Submitter supplied) This dataset contains total RNA sequencing results from rat embryonic cortical, hippocampal, and striatal neuronal cultures treated with either vehicle (complete Neurobasal media) or potassium chloride (10mM) for 1hr prior to RNA extraction.

Organism:: Rattus norvegicus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20084
19 Samples

Download data: TXT

Series

Accession:: GSE150499

ID:: 200150499

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20024794511.

A TLR4/Traf6-dependent signaling pathway mediates NCoR co-activator complex formation for inflammatory gene activation

(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

Platform:: GPL21103
152 Samples

Download data

Series

Accession:: GSE247945

ID:: 200247945

PubMed Full text in PMC Similar studies

Select item 20024794212.

A TLR4/Traf6-dependent signaling pathway mediates NCoR co-activator complex formation for inflammatory gene activation [RNA-seq]

(Submitter supplied) To investigate the cooperative function NCoR/HDAC3/PGC1β complex in TLR4-regulated inflammatory genes, we used bone marrow-derived macrophages treated with or without KLA. We then performed gene expression profiling analysis using data obtained from RNA-seq.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21103
44 Samples

Download data: TXT

Series

Accession:: GSE247942

ID:: 200247942

PubMed Full text in PMC Similar studies

Select item 20024794113.

A TLR4/Traf6-dependent signaling pathway mediates NCoR co-activator complex formation for inflammatory gene activation [ChIP-seq]

(Submitter supplied) To investigate the genomic localization of NCoR/HDAC3/PGC1β complex and the enhancer/promoter activity in inflammatory genes, we used NCoR KO or PGC1β KO bone marrow-derived macrophages and Traf6 siRNA knockdown bone marrow-derived macrophages. We then performed chromatin immunoprecipitation DNA-sequencing (ChIP-seq) for H3K27ac, NCoR, HDAC3, PGC1β, ERK1, p65, Fosl2, PU.1 and p300.

Organism:: Mus musculus

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

Platform:: GPL21103
100 Samples

Download data: TXT

Series

Accession:: GSE247941

ID:: 200247941

PubMed Full text in PMC Similar studies

Select item 20024793714.

A TLR4/Traf6-dependent signaling pathway mediates NCoR co-activator complex formation for inflammatory gene activation [ATAC]

(Submitter supplied) To investigate the enhancer/promoter activity in TLR4-regulated inflammatory genes, we used bone marrow-derived macrophages treated with or without KLA. We then analyzed open chromatin regions obtained from ATAC-seq data.

Organism:: Mus musculus

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

Platform:: GPL21103
8 Samples

Download data: TXT

Series

Accession:: GSE247937

ID:: 200247937

PubMed Full text in PMC Similar studies

Select item 20011896515.

Disruption of cardiac Med1 inhibits RNA polymerase-II promoter occupancy and induces chromatin remodeling

(Submitter supplied) The Mediator co-activator complex directs gene specific expression by binding distal enhancer-bound transcription factors through its Med1 subunit while bridging to RNA Polymerase-II (Pol-II) at gene promoters. In addition, Mediator scaffolds epigenetic modifying enzymes that determine local DNA accessibility. We previously found that deletion of Med1 in cardiomyocytes deregulates more than 5000 genes and promotes acute heart failure and hypothesize Med1 deficiency disrupts enhancer-promoter coupling. more...

Organism:: Mus musculus

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

Platform:: GPL18480
7 Samples

Download data: BW

Series

Accession:: GSE118965

ID:: 200118965

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Select item 20018662916.

Changes in nascent transcripts upon glucocorticoid stimulation in macrophages

(Submitter supplied) Glucocorticoids are widely prescribed anti-inflammatory drugs with tissue-specific effects. Beneficial anti-inflammatory effects are caused in cells of the immune system whereas metabolic adverse effects of glucocorticoid therapy are seen in metabolic tissues such as liver. The glucocorticoid receptor (GR), a nuclear receptor targeted by glucocorticoids, bind its DNA response elements upon ligand exposure in a tissue-specific manner. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
12 Samples

Download data: BW, GTF, TXT

Series

Accession:: GSE186629

ID:: 200186629

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20004591417.

Rev-Erbs repress macrophage gene expression by inhibiting enhancer-directed transcription

(Submitter supplied) Rev-Erba and Rev-Erbb are nuclear receptors that regulate the expression of genes involved in the control of circadian rhythm, metabolism, and inflammatory responses. Rev-Erbs function as transcriptional repressors by recruiting NCoR/HDAC3 co-repressor complexes to Rev-Erb response elements in enhancers and promoters of target genes, but the molecular basis for cell-specific programs of repression is not known. more...

Organism:: Mus musculus

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

Platforms:: GPL11002 GPL13112
15 Samples

Download data: BEDGRAPH, TXT

Series

Accession:: GSE45914

ID:: 200045914

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20007395818.

Target Gene Repression Based on Dismissal of Polymerase II from Estrogen Receptor Trans-bound Enhancers Is Associated With Clinical Outcome in Human Breast Cancer

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below. Keywords: Genome binding/occupancy profiling by high throughput sequencing

Organism:: Homo sapiens

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

Platform:: GPL16791
48 Samples

Download data: BIGWIG

Series

Accession:: GSE73958

ID:: 200073958

PubMed Full text in PMC Similar studies

Select item 20007395719.

Target Gene Repression Based on Dismissal of Polymerase II from Estrogen Receptor Trans-bound Enhancers Is Associated With Clinical Outcome in Human Breast Cancer [GRO-seq]

(Submitter supplied) We find that 17-β-estradiol (E2)-bound estrogen receptor α (ERα) is bound in trans to a cohort of FOXA1-dependent, constitutively activate enhancers, inactivating these enhancers by decommissioning/removing enhancer Polymerase II (Pol II), despite recruitment of coactivators. This is based on the surprising recruitment by the ERα DNA binding domain of the histone demethylase, KDM2A, which, functioning independently of its demethylase function. more...