Similar studies for GEO DataSets (Select 200084399) - GEO DataSets

Select item 2000843991.

Analysis of DNA methylation in TET1 depleted colorectal cancer HCT116 cells

(Submitter supplied) We aimed to analyze the relationship between TET1 and aberrant CpG methylation in colorectal cancer (CRC). We established two stable TET1 knockdown clones and negative control clones of HCT116 cells, and carried out DNA methylation analysis with HumanMethylation450 BeadChip.

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL13534
4 Samples

Download data: IDAT, TXT

Series

Accession:: GSE84399

ID:: 200084399

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000844002.

Analysis of DNA methylation and gene expression in TET1 depleted colorectal cancer cells

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

Organism:: Homo sapiens

Type:: Expression profiling by array; Methylation profiling by genome tiling array

Platforms:: GPL16699 GPL13534
30 Samples

Download data: IDAT, TXT

Series

Accession:: GSE84400

ID:: 200084400

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000843983.

Analysis of gene expression in TET1 depleted colorectal cancer HCT116 cells

(Submitter supplied) We aimed to analyze the relationship between TET1 and aberrant CpG methylation in colorectal cancer (CRC). We established two stable TET1 knockdown clones and negative control clones of HCT116 cells, and carried out gene expression analysis with Agilent Human Gene Expression microarray kit.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL16699
8 Samples

Download data: TXT

Series

Accession:: GSE84398

ID:: 200084398

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000843974.

Analysis of DNA methylation in TET1 depleted colorectal cancer Colo320DM cells

(Submitter supplied) We aimed to analyze the relationship between TET1 and aberrant CpG methylation in colorectal cancer (CRC). We established three stable TET1 knockdown clones and negative control clones of Colo320DM cells, and carried out DNA methylation analysis with HumanMethylation450 BeadChip.

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL13534
6 Samples

Download data: IDAT, TXT

Series

Accession:: GSE84397

ID:: 200084397

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000843965.

Analysis of gene expression in TET1 depleted colorectal cancer Colo320DM cells

(Submitter supplied) We aimed to analyze the relationship between TET1 and aberrant CpG methylation in colorectal cancer (CRC). We established three stable TET1 knockdown clones and negative control clones of Colo320DM cells, and carried out gene expression analysis with Agilent Human Gene Expression microarray kit.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL16699
12 Samples

Download data: TXT

Series

Accession:: GSE84396

ID:: 200084396

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000551606.

Epigenome signatures during gastric carcinogenesis based on next generation sequencing

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

Organism:: Homo sapiens

Type:: Genome variation profiling by SNP array; SNP genotyping by SNP array; Methylation profiling by high throughput sequencing

Platforms:: GPL9115 GPL6801
12 Samples

Download data: BED, CEL, CHP

Series

Accession:: GSE55160

ID:: 200055160

PubMed Full text in PMC Similar studies

Select item 2000551597.

Epigenome signatures during gastric carcinogenesis based on next generation sequencing analysis [Bisulfite-Seq]

(Submitter supplied) Because gastric cancer cells already had genetic and epigenetic alterations which can affect the gastric carcinogenesis, we tried to characterize genetic and epigenetic changes during gastric carcinogenesis. To do this, we performed MBD sequencing and RRBS sequencing.

Organism:: Homo sapiens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL9115
3 Samples

Download data: BED

Series

Accession:: GSE55159

ID:: 200055159

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000551578.

Epigenome signatures during gastric carcinogenesis based on next generation sequencing analysis [MBD-Seq]

(Submitter supplied) Because gastric cancer cells already had genetic and epigenetic alterations which can affect the gastric carcinogenesis, we tried to characterize genetic and epigenetic changes during gastric carcinogenesis. To do this, we performed MBD sequencing and RRBS sequencing.

Organism:: Homo sapiens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL9115
3 Samples

Download data: BED

Series

Accession:: GSE55157

ID:: 200055157

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000551539.

Epigenome signatures during gastric carcinogenesis based on next generation sequencing [Affymetrix]

(Submitter supplied) Because gastric cancer cells already had genetic and epigenetic alterations which can affect the gastric carcinogenesis, we tried to characterize genetic and epigenetic changes during gastric carcinogenesis. To do this, we performed SNP array.

Organism:: Homo sapiens

Type:: SNP genotyping by SNP array; Genome variation profiling by SNP array

Platform:: GPL6801
6 Samples

Download data: CEL, CHP

Series

Accession:: GSE55153

ID:: 200055153

PubMed Full text in PMC Similar studies

Select item 20011366410.

Analysis of gene expression in colorectal cancer RKO cells with UHRF1 depletion and HDAC inhibition

(Submitter supplied) UHRF1 is a major regulator of epigenetic mechanism and is overexpressed in various human malignancies. In this study, we examined the involvement of UHRF1 in aberrant DNA methylation in colorectal cancer (CRC). In CRC cells, transient UHRF1 knockdown rapidly induced DNA demethylation across entire genomic regions, including CpG islands, gene bodies and repetitive elements. Nonetheless, UHRF1 depletion only minimally reversed CpG island hypermethylation-associated gene silencing. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL16699
9 Samples

Download data: TXT

Series

Accession:: GSE113664

ID:: 200113664

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20010643911.

UHRF1 depletion and HDAC inhibition synergistically reactivate epigenetically silenced genes in colorectal cancer cells

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

Organism:: Homo sapiens

Type:: Expression profiling by array; Methylation profiling by genome tiling array

Platforms:: GPL13534 GPL16699
23 Samples

Download data: TXT

Series

Accession:: GSE106439

ID:: 200106439

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20010643812.

Analysis of DNA methylation in colorectal cancer RKO cells with UHRF1 depletion and HDAC inhibition

(Submitter supplied) UHRF1 is a major regulator of epigenetic mechanism and is overexpressed in various human malignancies. In this study, we examined the involvement of UHRF1 in aberrant DNA methylation in colorectal cancer (CRC). In CRC cells, transient UHRF1 knockdown rapidly induced DNA demethylation across entire genomic regions, including CpG islands, gene bodies and repetitive elements. Nonetheless, UHRF1 depletion only minimally reversed CpG island hypermethylation-associated gene silencing. more...

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL13534
3 Samples

Download data: IDAT, TXT

Series

Accession:: GSE106438

ID:: 200106438

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20010643713.

Analysis of DNA methylation in colorectal cancer DLD1 cells with UHRF1 depletion and HDAC inhibition

(Submitter supplied) UHRF1 is a major regulator of epigenetic mechanism and is overexpressed in various human malignancies. In this study, we examined the involvement of UHRF1 in aberrant DNA methylation in colorectal cancer (CRC). In CRC cells, transient UHRF1 knockdown rapidly induced DNA demethylation across entire genomic regions, including CpG islands, gene bodies and repetitive elements. Nonetheless, UHRF1 depletion only minimally reversed CpG island hypermethylation-associated gene silencing. more...

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL13534
3 Samples

Download data: IDAT, TXT

Series

Accession:: GSE106437

ID:: 200106437

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20010640214.

Analysis of gene expression in colorectal cancer DLD1 cells with UHRF1 depletion and HDAC inhibition

(Submitter supplied) UHRF1 is a major regulator of epigenetic mechanism and is overexpressed in various human malignancies. In this study, we examined the involvement of UHRF1 in aberrant DNA methylation in colorectal cancer (CRC). In CRC cells, transient UHRF1 knockdown rapidly induced DNA demethylation across entire genomic regions, including CpG islands, gene bodies and repetitive elements. Nonetheless, UHRF1 depletion only minimally reversed CpG island hypermethylation-associated gene silencing. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL16699
8 Samples

Download data: TXT

Series

Accession:: GSE106402

ID:: 200106402

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003929215.

Oncogenic EGFR Represses the TET1 DNA Demethylase to Induce Silencing of Tumor Suppressors in Cancer Cells

(Submitter supplied) Oncogene-induced DNA methylation-mediated transcriptional silencing of tumor suppressors frequently occurs in cancer, but the mechanism and functional role of this silencing in oncogenesis is not fully understood. Here, we show that oncogenic epidermal growth factor receptor (EGFR) induces silencing of multiple unrelated tumor suppressors in lung adenocarcinomas and glioblastomas by inhibiting DNA demethylase TET oncogene family member 1 (TET1) via the C/EBPα transcription factor. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL10558
12 Samples

Download data: TXT

Series

Accession:: GSE39292

ID:: 200039292

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003553416.

Genome-wide copy number aberrations and methylation profiles in human colorectal lesions

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

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array; Genome variation profiling by genome tiling array

Platforms:: GPL10123 GPL15182
172 Samples

Download data: TXT

Series

Accession:: GSE35534

ID:: 200035534

Select item 20003550817.

Methylated CpG island amplification (MCA) microarray analysis of human colorectal tumors

(Submitter supplied) The concept of the CpG island methylator phenotype (CIMP) in colorectal cancer (CRC) is widely accepted, though the timing of its occurrence and its interaction with other genetic defects are not fully understood. Our aim in this study was to unravel the molecular development of CIMP cancers by dissecting their genetic and epigenetic signatures in precancerous and malignant colorectal lesions.

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL15182
88 Samples

Download data: TXT

Series

Accession:: GSE35508

ID:: 200035508

Select item 20003547618.

Array CGH analysis of human colorectal tumors

(Submitter supplied) The concept of the CpG island methylator phenotype (CIMP) in colorectal cancers (CRCs) is widely accepted, though the timing of its occurrence and its interaction with other genetic defects early during carcinogenesis remains largely unknown. Our aim was to uncover the molecular evolution of CIMP CRCs through integrative analysis of endoscopic, histological and molecular signatures in precancerous and malignant colorectal lesions.

Organism:: Homo sapiens

Type:: Genome variation profiling by genome tiling array

Platform:: GPL10123
84 Samples

Download data: TXT

Series

Accession:: GSE35476

ID:: 200035476

Select item 20004741319.

Aberrant promoter methylation and gene amplification in colorectal cancer

(Submitter supplied) To identify new markers for colorectal cancer we scrutinized the methylation status by methyl-CpG immunoprecipitation followed by global methylation profiling on a CpG island microarray, as altered expression could drive genomic and chromosomal instability observed in these tumors. We show for the first time hypermethylation of MMP9, DNMT3A, and LIG4 in CRC which was confirmed in two independent ethnic CRC patients groups. more...