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Links from GEO DataSets

Items: 17

1.

Histone H3 lysine 9 di-methylation as an epigenetic signature of the interferon response (sequencing)

(Submitter supplied) Effective anti-viral immunity depends on the ability of infected cells or cells triggered with virus-derived nucleic acids to produce type I interferon (IFN), which activates transcription of numerous antiviral genes. However, disproportionately strong or chronic IFN expression is a common cause of inflammatory and autoimmune diseases. Here we describe an epigenetic mechanism that determines cell-type specific differences in IFN and IFN-stimulated gene expression in response to exogenous signals. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL9250 GPL13112
48 Samples
Download data: WIG
Series
Accession:
GSE22102
ID:
200022102
2.

Histone H3 lysine 9 di-methylation as an epigenetic signature of the interferon response

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL9250 GPL6885
76 Samples
Download data: WIG
Series
Accession:
GSE24826
ID:
200024826
3.

Histone H3 lysine 9 di-methylation as an epigenetic signature of the interferon response (WT and G9a deficient MEFs)

(Submitter supplied) Effective anti-viral immunity depends on the ability of infected cells or cells triggered with virus-derived nucleic acids to produce type I interferon (IFN), which activates transcription of numerous antiviral genes. However, disproportionately strong or chronic IFN expression is a common cause of inflammatory and autoimmune diseases. Here we describe an epigenetic mechanism that determines cell-type specific differences in IFN and IFN-stimulated gene expression in response to exogenous signals. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6885
26 Samples
Download data: TXT
Series
Accession:
GSE24776
ID:
200024776
4.

Histone H3 lysine 9 di-methylation as an epigenetic signature of the interferon response (WT and G9a deficient DCs)

(Submitter supplied) Effective anti-viral immunity depends on the ability of infected cells or cells triggered with virus-derived nucleic acids to produce type I interferon (IFN), which activates transcription of numerous antiviral genes. However, disproportionately strong or chronic IFN expression is a common cause of inflammatory and autoimmune diseases. Here we describe an epigenetic mechanism that determines cell-type specific differences in IFN and IFN-stimulated gene expression in response to exogenous signals. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6885
12 Samples
Download data: TXT
Series
Accession:
GSE24774
ID:
200024774
5.

Histone 3 Lysine 9 Dimethylation Attenuates the Vascular Smooth Muscle Cell Inflammatory Response

(Submitter supplied) Vascular inflammation underlies cardiovascular disease. Vascular smooth muscle cells (VSMCs) upregulate selective genes, including matrix metalloproteinases (MMPs) and pro-inflammatory cytokines in response to local inflammation, which directly contribute to vascular disease and adverse clinical outcome. Identification of factors controlling VSMC responses to inflammation is therefore of considerable therapeutic importance. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL17021
4 Samples
Download data: TXT
Series
Accession:
GSE131212
ID:
200131212
6.

Histone H3K9 Methyltransferase G9a Represses PPARγ Expression and Adipogenesis

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platforms:
GPL1261 GPL13112
12 Samples
Download data: BED, CEL
Series
Accession:
GSE41457
ID:
200041457
7.

Histone H3K9 Methyltransferase G9a Represses PPARγ Expression and Adipogenesis [Affymetrix expression data]

(Submitter supplied) PPARγ promotes adipogenesis while Wnt proteins inhibit adipogenesis. However, the mechanisms that control expression of these positive and negative master regulators of adipogenesis remain incompletely understood. By genome-wide histone methylation profiling in preadipocytes, we find that among gene loci encoding adipogenesis regulators, histone methyltransferase (HMT) G9a-mediated repressive epigenetic mark H3K9me2 is enriched on the entire PPARγ locus. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
4 Samples
Download data: CEL
Series
Accession:
GSE41456
ID:
200041456
8.

Histone H3K9 Methyltransferase G9a Represses PPARγ Expression and Adipogenesis [ChIP-Seq and RNA-Seq data]

(Submitter supplied) PPARγ promotes adipogenesis while Wnt proteins inhibit adipogenesis. However, the mechanisms that control expression of these positive and negative master regulators of adipogenesis remain incompletely understood. By genome-wide histone methylation profiling in preadipocytes, we find that among gene loci encoding adipogenesis regulators, histone methyltransferase (HMT) G9a-mediated repressive epigenetic mark H3K9me2 is enriched on the entire PPARγ locus. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platform:
GPL13112
8 Samples
Download data: BED
Series
Accession:
GSE41455
ID:
200041455
9.

RNA Sequencing Analysis of Mouse Bone Marrow Derived Dendritic Cells Transcriptomes During Maturation

(Submitter supplied) Purpose:The purpose of this study is to detect activated or silenced genes during LPS-induced dendritic cell maturation. Gene expression differences between two samples could be found using transcriptome profiling (RNA-seq) analysis. Methods:Mouse dendritic cells were generated from bone marrow cells in RPMI-1640 medium with recombinant mouse GM-CSF and IL-4, mature DCs were obtained after LPS induced maturation. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
2 Samples
Download data: TXT
Series
Accession:
GSE60307
ID:
200060307
10.

Next Generation Sequencing Facilitates Quantitative Analysis of IFNα Stimulated Transcriptomes in HepG2, SETD2-KO, STAT1-KO and STAT1-K525ARe HepG2 cells

(Submitter supplied) Purpose: Using RNA-seq to analyze the different expressions induced by IFNα among the SETD2-KO HepG2 cells, STAT1-KO HepG2 cells and STAT1-K525A-Re HepG2 cells and HepG2 control cells Methods: mRNA profiles of HepG2 control cells and SETD2-KO cells, STAT1-KO cells, STAT1-K525A-Re cells were generated by deep sequencing, using BGISEQ-500RS. The sequence reads that passed quality filters were analyzed at the transcriptional level with RSEM (RNA-seq by Expectation Maximization).
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23227
8 Samples
Download data: TXT
Series
Accession:
GSE98372
ID:
200098372
11.

SPT6 interacts with NSD2 and facilitates interferon-stimulated transcription

(Submitter supplied) SPT6, encoded by the SUPT6H in humans and Supt6 in mice, respectively, is a conserved histone chaperone that interacts with RNA polymerase II and participates in transcription elongation. However, the question of how SPT6 comes into play in transcriptional activation upon signaling, particularly in mammalian cells, has remained elusive. We investigated the contribution of SPT6 to interferon beta (IFNbeta) induced transcription in mouse NIH3T3 cells. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
6 Samples
Download data: TXT
Series
Accession:
GSE97302
ID:
200097302
12.

Interferon stimulation creates chromatin marks to establish transcriptional memory

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL6246
60 Samples
Download data: CEL, CHP, WIG
Series
Accession:
GSE89440
ID:
200089440
13.

Genome-wide maps of chromatin state in interferon stimulated cells

(Submitter supplied) We have analyzed epigenetic state of interferon stimulated cells and found that histone H3.3 and H3K36me3 chromatin marks were increased to regulate transcriptional memory.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
34 Samples
Download data: WIG
Series
Accession:
GSE89351
ID:
200089351
14.

Next Generation Sequencing Facilitates Quantitative Analysis of interferon stimulated MEFs Transcriptomes [RNA-Seq]

(Submitter supplied) Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived interferon-stimulated MEF cells transcriptome profiling (RNA-seq).
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
10 Samples
Download data: TXT
Series
Accession:
GSE89349
ID:
200089349
15.

Microarray analysis of interferon stimulated bone-marrow derived macrophages Transcriptomes

(Submitter supplied) We used global microarray analysis to identify genes which are regulated by Interferon-gamma stimulation in Bone-marrow derived macrophages.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6246
16 Samples
Download data: CEL, CHP
Series
Accession:
GSE89092
ID:
200089092
16.

Transcriptome of wild-type and G9a mutant upon viral challenge

(Submitter supplied) The aim of the study was to generate transcriptome of wild-type and G9a mutant adult flies (females) 24h post-infection with Drosophila C Virus (DCV).
Organism:
Drosophila melanogaster
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13304
8 Samples
Download data: TXT
Series
Accession:
GSE56013
ID:
200056013
17.

Intrinsic Immunity Shapes Viral Resistance of Stem Cells

(Submitter supplied) Numerous studies have demonstrated that stem cells are more resistant to virus infection than their differentiated progenies; however, the nature of this differential virus resistance remains a mystery. Here we analyzed gene expression in both mammalian stem cells and cells at various stages of differentiation. We found that stem cells intrinsically express a subset of interferon stimulated genes (ISGs) and that this property is conserved across species. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
68 Samples
Download data: TXT
Series
Accession:
GSE97987
ID:
200097987
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