Similar studies for GEO DataSets (Select 200106626) - GEO DataSets

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Items: 20

Select item 2001066261.

FOXF1 defines the core-regulatory circuitry in gastrointestinal stromal tumor (GIST)

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

Organism:: Homo sapiens

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

Platform:: GPL16791
38 Samples

Download data: BIGWIG, NARROWPEAK

Series

Accession:: GSE106626

ID:: 200106626

PubMed Full text in PMC Similar studies

Select item 2001066252.

Expression profile of GIST48 cells with siETV1 or siFOXF1 knockdown

(Submitter supplied) To study FOXF1 transcriptome and compare that with ETV1 transcriptome, we knocked down ETV1 or FOXF1 with siRNA in GIST48 cells and studied the transcriptome changes

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16791
6 Samples

Download data: XLS

Series

Accession:: GSE106625

ID:: 200106625

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001066243.

ETV1 and FOXF1 cistrome in wildtype GIST48, GIST-T1, MDA-PCa2b, and ETV1 or FOXF1 knocked-down GIST48 cells

(Submitter supplied) ChIP profiles were generated by deep sequencing using Illumina HiSeq.

Organism:: Homo sapiens

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

Platform:: GPL16791
23 Samples

Download data: BIGWIG, NARROWPEAK

Series

Accession:: GSE106624

ID:: 200106624

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001066234.

Chromatin accessibility of GIST48, GIST882 and GIST-T1 cells with ETV1 or FOXF1 knockdown

(Submitter supplied) ATAC profiles were generated by deep sequencing using Illumina HiSeq.

Organism:: Homo sapiens

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

Platform:: GPL16791
9 Samples

Download data: BIGWIG

Series

Accession:: GSE106623

ID:: 200106623

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000228525.

Gastrointestinal stromal tumor GIST: gene expresssion and ChIP analyses

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

Organism:: Homo sapiens

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

Platforms:: GPL9115 GPL6947
20 Samples

Download data: BED

Series

Accession:: GSE22852

ID:: 200022852

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000224416.

Mapping of ETV1 genomic binding sites in gastrointestinal stromal tumor (GIST).

(Submitter supplied) ETV1 is highly expressed in GIST and their presumed precursors--the interstitial cells of Cajal. ETV1 is required for survival for both GIST and ICC and regulates GIST signature genes. Here, using Illumina-Solexa based next-generation sequencing of ETV1 chromatin immunoprecipates (ChIP-Seq), we define ETV1 binding sites in the GIST48 cell line.

Organism:: Homo sapiens

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

Platform:: GPL9115
2 Samples

Download data: BED

Series

Accession:: GSE22441

ID:: 200022441

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000224337.

Imatinib Treatment of GIST882

(Submitter supplied) Gastrointestinal Stromal Tumor frequently harbor mutations in the KIT receptor tyrosine kinase and depend on its activity for growth. This underlies the efficacy of imatinib, a inhibitor of KIT activity, in GIST management. GIST882 is a patient derived GIST cell line that harbor a K640E exon 13 KIT mutation and is sensitive to imatinib treatment. To analyze the downstream effect of KIT inhibition, GIST882 cells were treated for 8 hours with 1μM Imatinib.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL6947
6 Samples

Download data: TXT

Series

Accession:: GSE22433

ID:: 200022433

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000193968.

ETV1 knockdown in GIST cell lines

(Submitter supplied) ETV1 is highly expressed in GIST cells and required for their survival and growth. To identify genes and pathways regulated by ETV1 in GIST, we performed expression profiles of GIST cells after ETV1 knockdown.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL6947
12 Samples

Download data: TXT

Series

Accession:: GSE19396

ID:: 200019396

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000646099.

ChIP-Seq of Histone H3K4me1 and H3K4me3 in human GIST48 cells

(Submitter supplied) We previously mapped ETV1 using ChIP-Seq in GIST48 cells (GSE22441). Here, we map the enhancer landscape marked by histone H3K4me1 and the promoter landscape marked by histone H3K4me3 in GIST48 cells.

Organism:: Homo sapiens

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

Platform:: GPL9115
2 Samples

Download data: BED

Series

Accession:: GSE64609

ID:: 200064609

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20006460810.

RNA-Seq of murine GIST-like tumors after Etv1 ablation

(Submitter supplied) We used a mouse expressing three alleles 1) KitV558Delta/+ activating allele that develop GIST-like tumors in the cecum, 2) Etv1 flox/flox conditional knockout allele and 3) Rosa26-CreERT2 tamoxifen activated Cre allele. Mice were treated with either Tamoxifen (to delete Etv1) or corn oil (control). Cecal tumors were isolated for gene expression profiling by RNA-Seq.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
8 Samples

Download data: TXT

Series

Accession:: GSE64608

ID:: 200064608

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20007783911.

Transcriptome analysis of a FACS-sorted human intersitial cells of Cajal (ICC) [array]

(Submitter supplied) Interstitial cells of Cajal (ICC) are electrical pacemakers and mediators of neuromuscular neurotransmission in the gastrointestinal tract. Gastrointestinal stromal tumors (GIST) arise within the ICC lineage due to activating KIT/PDGFRA mutations. In this study we developed a method for isolation of human ICC by immunolabeling and fluorescence-activated cell sorting (FACS). Briefly, human gastric musculature was dissociated and incubated with antibodies against CD45, FCER1A, CD11B, KIT, and CD34. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL570
14 Samples

Download data: CEL

Series

Accession:: GSE77839

ID:: 200077839

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20015132312.

Anatomic and transcriptional determinants of gastrointestinal stromal tumor

(Submitter supplied) Malignant transformation of the interstitial cells of Cajal (ICC) or their precursors gives rise to gastrointestinal stromal tumor (GIST). This mesenchymal neoplasm is characterized by activating mutations in the receptor tyrosine kinases KIT, or other less common mutational subtypes. GIST relies on a highly conserved core transcription factor (TF) network, with expression of accessory disease-state specific TFs. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
9 Samples

Download data: TXT

Series

Accession:: GSE151323

ID:: 200151323

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

Select item 20009586413.

Gastrointestinal Stromal Tumor Enhancers Support a Transcription Factor Network Predictive of Clinical Outcome

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

Organism:: Homo sapiens

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

Platform:: GPL18573
74 Samples

Download data: WIG

Series

Accession:: GSE95864

ID:: 200095864

PubMed Full text in PMC Similar studies

Select item 20009586314.

Gastrointestinal Stromal Tumor Enhancers Support a Transcription Factor Network Predictive of Clinical Outcome

(Submitter supplied) Activating mutations in the KIT or PDGFRA receptor tyrosine kinases are hallmarks of gastrointestinal stromal tumor (GIST). The biological underpinnings of recurrence following resection or disease progression beyond kinase mutation are poorly understood. Utilizing chromatin immunoprecipitation with sequencing (ChIP-seq) of tumor samples and cell lines, we describe the enhancer landscape of GIST, highlighting genes that reinforce and extend our understanding of these neoplasms. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
20 Samples

Download data: TXT

Series

Accession:: GSE95863

ID:: 200095863

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

Select item 20009586215.

Gastrointestinal Stromal Tumor Enhancers Support a Transcription Factor Network Predictive of Clinical Outcome

Organism:: Homo sapiens

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

Platform:: GPL18573
52 Samples

Download data: WIG

Series

Accession:: GSE95862

ID:: 200095862

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20009586116.

Gastrointestinal Stromal Tumor Enhancers Support a Transcription Factor Network Predictive of Clinical Outcome

Organism:: Homo sapiens

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

Platform:: GPL18573
2 Samples

Download data: WIG

Series

Accession:: GSE95861

ID:: 200095861

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20011245817.

Functional CRISPR Screen Identifies AP1-associated Enhancer regulating FOXF1 to modulate Oncogene-Induced Senescence

(Submitter supplied) We carried out CRISPR-Cas9 functional screen focused on AP-1 bound enhancers that are activated upon oncogenic stress. The screen discovered Enh.AP1.OIS1 - an enhancer bound by AP1 that is required for activation of oncogene-induced senescence (OIS) response. We applied RNA-seq analysis to RASG12V-activated BJ cells transduced with either sgRNAs targeting AP-1 bound enhancer (sgRNA-69 or sgRNA71), or sgRNA targeting the target gene FOXF1 or non-targeting control sgRNA (sgNT)

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16791
4 Samples

Download data: TXT

Series

Accession:: GSE112458

ID:: 200112458

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

Select item 20007432818.

BRD4 connects enhancer remodeling to senescence immune surveillance

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

Organism:: Homo sapiens

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

Platforms:: GPL16791 GPL11154
94 Samples

Download data: BIGWIG

Series

Accession:: GSE74328

ID:: 200074328

PubMed Full text in PMC Similar studies

Select item 20007432419.

BRD4 connects enhancer remodeling to senescence immune surveillance (RNA-seq)

(Submitter supplied) Cellular senescence is a homeostatic program associated with tumor suppression, wound healing, and certain age related pathologies. Senescent cells display a repressive chromatin configuration thought to stably silence proliferation-promoting genes, while at the same time activate an unusual form of immune surveillance involving a secretory program referred to as the senescence-associated secretory phenotype (SASP). more...