GPL10999[RGSE] - GEO DataSets

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Select item 2002659281.

Gene expression profiling of Trophoblast Stem Cells with Progesterone Receptor (PGR) knockdown

(Submitter supplied) As medical abortion has established itself as the significant method of terminating pregnancies, many studies in recent years has focused on Mifepristone, a principal agent used in this field. It can be found that much effort has been devoted to the research on the impact of Mifepristone on the decidua and embryo implantation process in the mechanism of abortion and contraception; the mechanism of its impact on trophoblast cells, however, still remains unclear. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL10999
6 Samples

Download data: XLSX

Series

Accession:: GSE265928

ID:: 200265928

Select item 2002618972.

Disruption of deoxynucleotide biosynthesis leads to RASproto-oncogene activation and perturbation of mitochondrial metabolism.

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

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Other

Platforms:: GPL30173 GPL10999
42 Samples

Download data

Series

Accession:: GSE261897

ID:: 200261897

Select item 2002618963.

Disruption of deoxynucleotide biosynthesis leads to RASproto-oncogene activation and perturbation of mitochondrial metabolism [DNA-seq]

(Submitter supplied) Perturbation of the deoxyribonucleotide triphosphate (dNTP) pool is recognized for contributing to the mutagenic processes involved in oncogenesis. The RAS gene family encodes well characterized oncoproteins whose structure and function are among the most frequently altered in several cancers. In this work, we show that fluctuation of the dNTP pool induces CG->TA mutations across the whole genome, including RAS gene at codons for glycine 12 and 13, known hotspots in cancers. more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL10999
24 Samples

Download data: CSV

Series

Accession:: GSE261896

ID:: 200261896

Select item 2002763384.

Epigenetic evidence of an Ac/Dc axis by VPA and SAHA

(Submitter supplied) Valproic acid (VPA) is one of the most commonly used anti-epileptic drugs with pharmacological actions on GABA and blocking voltage-gated ion channels. VPA also inhibits histone deacetylase (HDAC) activity. Suberoylanilide hydroxamic acid is also a member of a larger class of compounds that inhibit HDACs. At the time of this article, there are 123 active international clinical trials for VPA (also known as valproate, convulex, divalproex, and depakote) and SAHA (vorinostat, zolinza). more...

Organism:: Homo sapiens

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

Platform:: GPL10999
21 Samples

Download data: TSV

Series

Accession:: GSE276338

ID:: 200276338

Select item 2002479775.

Glioblastoma initiation, migration, and cell types are regulated by core bHLH transcription factors ASCL1 and OLIG2 [ChIP-seq]

(Submitter supplied) Glioblastomas (GBMs) are highly aggressive, infiltrative, and heterogeneous brain tumors driven by complex driver mutations and glioma stem cells (GSCs). The neurodevelopmental transcription factors ASCL1 and OLIG2 are co-expressed in GBMs, but their role in regulating the heterogeneity and hierarchy of GBM tumor cells is unclear. Here, we show that oncogenic driver mutations lead to dysregulation of ASCL1 and OLIG2, which function redundantly to initiate brain tumor formation in a mouse model of GBM. more...

Organism:: Homo sapiens

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

Platform:: GPL10999
4 Samples

Download data: BEDGRAPH

Series

Accession:: GSE247977

ID:: 200247977

Select item 2002689346.

Colorectal cancer progression to metastasis is associated with dynamic genome-wide biphasic 5-hydroxymethylcytosine accumulation.

(Submitter supplied) Colorectal cancer (CRC) progression from adenoma to adenocarcinoma is associated with global reduction in 5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC). DNA hypomethylation continues upon liver metastasis. Here we show that 5hmC is increased in metastatic liver tissue relative to the primary colon tumour and that expression of TET2 and TET3 is negatively correlated with risk for metastasis in patients with CRC. more...

Organism:: Homo sapiens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL10999
18 Samples

Download data: NARROWPEAK

Series

Accession:: GSE268934

ID:: 200268934

Select item 2002606427.

Cytokine stimulated keratinocytes (TCF4 KD)

(Submitter supplied) In order to study the molecular mechanisms involving TCF4 in keratinocytes under different inflammatory responses, control and TCF4 knock down keratinocytes were stimulated with inflammatory cytokines and conducted RNA-seq to profile the gene expression.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL10999
72 Samples

Download data: TXT

Series

Accession:: GSE260642

ID:: 200260642

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2002368478.

Epigenomic Analyses Identify FOXM1 As a Key Regulator of Anti-Tumor Immune Response in Esophageal Adenocarcinoma

(Submitter supplied) We identified FOXM1 as an EAC-specific candidate transcription factor using GSEA analysis. Functionality of FOXM1 was evaluated in both EAC patient derived organoids and EAC cell lines by measuring cell proliferation, colony formation, and xenograft growth. A FOXM1 signature through the overlap of ESO26, SKGT4, and OE33 intersected ChIP-seq peaks and ESO26 siFOXM1 RNA-seq downregulated genes. Upstream transcriptional regulation of FOXM1 was evaluated with this FOXM1 gene signature and validated using pharmacological inhibition. more...

Organism:: Homo sapiens

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

Platform:: GPL10999
6 Samples

Download data: NARROWPEAK, TXT

Series

Accession:: GSE236847

ID:: 200236847

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000770119.

Mapping the human diabetic methylome

(Submitter supplied) Using methyl CpG binding domain capture and deep sequencing (MBD-seq) we examined white blood cells isolated from individuals with or without diabetic complications and non-diabetic controls. Sample where obatined from the Finnish Diabetic Nephropathy Study (FinnDiane)

Organism:: Homo sapiens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL10999
39 Samples

Download data: TXT

Series

Accession:: GSE77011

ID:: 200077011

SRA Run Selector

Select item 20020018310.

BPTF inhibitor increases gastric cancer response to Erlotinib by epigenetically regulating c-MYC/PLCG1/pErk axis.

(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

Platforms:: GPL10999 GPL24676
6 Samples

Download data: BED, TXT, XLSX

Series

Accession:: GSE200183

ID:: 200200183

PubMed Full text in PMC Similar studies

Select item 20020018111.

BPTF inhibitor increases gastric cancer response to Erlotinib by epigenetically regulating c-MYC/PLCG1/pErk axis [ChIP-seq]

(Submitter supplied) Chromatin immunoprecipitation with massively parallel DNA sequencing (ChIP-Seq) was performed by using the anti-BPTF antibody in MGC803 cells to explore the downstream target genes of BPTF.

Organism:: Homo sapiens

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

Platform:: GPL10999
4 Samples

Download data: BED, TXT

Series

Accession:: GSE200181

ID:: 200200181

PubMed Full text in PMC Similar studies

Select item 20020598012.

Inverse Agonists of the Androgen Receptor

(Submitter supplied) We report the efficacy of androgen receptor inverse agonists (ARIAs) in altering androgen receptor (AR) transcriptional activity. Through RNA-sequencing studies in a panel of prostate cancer cell lines and patient derived xenograft models, we demonstrate ARIAs succcessfully inhibit androgen response gene sets. ChIP-seq and CUT&RUN studies demonstrate H3K27ac decreases at AR-target genes in response to treatment. more...

Organism:: Homo sapiens

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

Platforms:: GPL24676 GPL10999 GPL9052
57 Samples

Download data: BED, HIC, TXT

Series

Accession:: GSE205980

ID:: 200205980

Analyze with GEO2R

Select item 20019410713.

Human podocyte cell line mRNA-seq

(Submitter supplied) To investigate the downstream targets of the enhanced circHIPK3 expression accounting for high glucose-induced podocyte injury by RNA-seq

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL10999
4 Samples

Download data: TXT

Series

Accession:: GSE194107

ID:: 200194107

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20020112114.

Integrative genetic and genomic networks identify microRNA associated with COPD and ILD

(Submitter supplied) Chronic obstructive pulmonary disease (COPD) and interstitial lung disease (ILD) are clinically and molecularly heterogeneous diseases. We utilized clustering and integrative network analyses to elucidate roles for microRNAs (miRNAs) and miRNA isoforms (isomiRs) in COPD and ILD pathogenesis. Short RNA sequencing was performed on 351 lung tissue samples of COPD (n=145), ILD (n=144) and controls (n=64). more...

Organism:: Homo sapiens

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

Platforms:: GPL10999 GPL11154
371 Samples

Download data: TXT

Series

Accession:: GSE201121

ID:: 200201121

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20009706915.

Genome-wide analysis of miRNAs suggests a differential microRNAs signature associated with Normal and Diabetic limbal human corneas

(Submitter supplied) Small non-coding RNAs, in particular microRNAs (miRNAs), regulate fine-tuning of gene expression and can impact a wide range of biological processes. Using deep sequencing analysis, we investigated miRNA expression profiles in central and limbal regions of normal and diabetic human corneas. We identified differentially expressed miRNAs in limbus vs. central cornea in normal and diabetic (DM) corneas including both type I (T1DM/IDDM) and type II (T2DM/NIDDM). more...

Organism:: Homo sapiens

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

Platform:: GPL10999
44 Samples

Download data: TXT

Series

Accession:: GSE97069

ID:: 200097069

SRA Run Selector

Select item 20014333916.

Next Generation Sequencing of Exosomal and Cellular miRNAs Between hCEp and Siha

(Submitter supplied) To investigate the differences in miRNA profiles, exosomal and cellular miRNA profiles between hCEp (Human Cervical Epithelia Cells) and Siha cells were generated by deep sequencing, in triplicate, using Illumina GAIIx. qRT–PCR validation was performed using TaqMan and SYBR Green assays

Organism:: Homo sapiens

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

Platform:: GPL10999
12 Samples

Download data: TXT

Series

Accession:: GSE143339

ID:: 200143339

Analyze with GEO2R SRA Run Selector

Select item 20021678017.

Effect of overexpression of TRPM8 on gene expression of tumor pericytes

(Submitter supplied) RNA-sequencing for 6 samples

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL10999
6 Samples

Download data: XLSX

Series

Accession:: GSE216780

ID:: 200216780

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20021649018.

Metabolic pathways enriched according to ERG status are associated with biochemical recurrence in Hispanic/Latino patients with prostate cancer

(Submitter supplied) Background The role of ERG-status molecular subtyping in prognosis of prostate cancer (PCa) is still under debate. In this study, we identified differentially expressed genes (DEGs) according to ERG-status to explore their enriched pathways and implications in prognosis in Hispanic/Latino PCa patients. Methods RNA from 78 Hispanic PCa tissues from radical prostatectomies (RP) were used for RNA-sequencing. more...