Similar studies for GEO DataSets (Select 200010455) - GEO DataSets

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Items: 20

Select item 2000104551.

(Submitter supplied) We found frequent epigenetic silencing of microRNA-34b/c in human colorectal cancer. Introduction of miR-34b/c into a colorectal cancer cell line induced significant changes in gene expression profile. We also found overlap between the genes downregulated by miR-34b/c and those downregulated by DAC. Keywords: dose response

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL4133
5 Samples

Download data: TXT

Series

Accession:: GSE10455

ID:: 200010455

Select item 2000064742.

miRNA let-7a-3 overexpression in lung cancer cell line A549

(Submitter supplied) MicroRNAs (miRNAs) are small non-coding RNAs that repress their target mRNAs by complementary base pairing and induction of the RNAi pathway. It has been shown that miRNA expression can be regulated by DNA methylation and it has been suggested that altered miRNA gene methylation might contribute to human tumorigenesis. In this study, we show that the human let-7a-3 gene on chromosome 22q13.31 is associated with a CpG island. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL3050
4 Samples

Download data: GPR

Series

Accession:: GSE6474

ID:: 200006474

Select item 2000092673.

Epigenetically Silenced Genes Found Using Methylated DNA Immunoprecipitation in Colon Cancer Cells Deficient in DNMTs

(Submitter supplied) CpG island promoter hypermethylation of tumor suppressor genes is a common hallmark of human cancer, and new large-scale epigenomic technologies might be useful in our attempts to define the complete DNA hypermethylome of tumor cells. Here we report a functional search for hypermethylated CpG islands using the colorectal cancer cell line HCT-116, in which two major DNA methyltransferases, DNMT1 and DNMT3b, have been genetically disrupted (DKOcells). more...

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platforms:: GPL4089 GPL4090
4 Samples

Download data: TXT

Series

Accession:: GSE9267

ID:: 200009267

Select item 2000288624.

Pancreatic cancer vs. paired normal control

(Submitter supplied) The miRNA expression between normal and cancerous pancreatic tissues and identified preferentially expressed miRNAs.

Organism:: Mus musculus; Murid betaherpesvirus 1; JC polyomavirus; Human immunodeficiency virus 1; Human gammaherpesvirus 8; Rattus norvegicus; Murid gammaherpesvirus 4; Betapolyomavirus hominis; Homo sapiens; Human alphaherpesvirus 1; Human betaherpesvirus 5; human gammaherpesvirus 4; Betapolyomavirus macacae

Type:: Non-coding RNA profiling by array

Platform:: GPL7723
3 Samples

Download data: TXT

Series

Accession:: GSE28862

ID:: 200028862

PubMed Similar studies

Select item 2000474135.

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...

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL9767
16 Samples

Download data: TXT

Series

Accession:: GSE47413

ID:: 200047413

Select item 2000299006.

microRNA expression signatures in colorectal cancer cell lines with demethylating treatment

(Submitter supplied) To screen for epigenetically silenced miRNAs, wecarried out miRNA microarray analysis in three colorectal cancer (CRC) cell lines (HCT116, DLD-1 and RKO) treated with or without 5-aza-2'-deoxycytidine (aza). HCT116 and RKO cells were also treated with aza plus 4-phenylbutyric acid (PBA). In addition, we analyzed HCT116 cells in which the DNA methyltransferase genes DNMT1 and DNMT3B were genetically disrupted (double knockout; DKO cells), thereby abrogating DNA methylation. more...

Organism:: Homo sapiens

Type:: Non-coding RNA profiling by array

Platform:: GPL6955
10 Samples

Download data: TXT

Series

Accession:: GSE29900

ID:: 200029900

Select item 2000297607.

Expression signature in a human colorectal cancer cell line HCT116 transfected with miR-1 precursor molecule

(Submitter supplied) We identified that miR-1 is silenced in association with CpG island hypermethylation in a colorectal cancer (CRC) cell line, HCT116. To determine whether miR-1 serves as a tumor suppressor in CRC, we transfected CRC cell lines with a miR-1 precursor molecule or a negative control, and carried then out a series of MTT assays. Forty-eight hours after transfection, we observed that ectopic expression of miR-1 moderately suppressed growth in all three cell lines. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL4133
2 Samples

Download data: TXT

Series

Accession:: GSE29760

ID:: 200029760

Select item 2000040098.

Methylation profiling of leukemia cell lines

(Submitter supplied) Methylation of CpG islands is associated with transcriptional repression and, in cancer, leads to the abnormal silencing of tumor-suppressor genes. We developed a novel and robust technique that allows the unbiased, genome wide detection of CpG-methylation in limited DNA samples, without applying methylation-sensitive restriction endonucleases or bisulfite-treatment. The approach is based on a recombinant, methyl-CpG binding protein that efficiently binds CpG-methylated DNA depending on its degree of CpG methylation. more...

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL2040
10 Samples

Download data

Series

Accession:: GSE4009

ID:: 200004009

Select item 2000032809.

Expression profiling of leukemia cell lines

(Submitter supplied) Methylation of CpG islands is associated with transcriptional repression and, in cancer, leads to the abnormal silencing of tumor-suppressor genes. Genome wide methylation profiling of myeloid leukemia cell lines identified a large number of genes with aberrantly methylated CpG islands. Comparative mRNA expression analysis suggests that more than half of these genes show extremely low or absent expression in normal cells, suggesting that hypermethylation in cancer may be independent of the transcriptional status of the affected gene. more...

Organism:: Homo sapiens

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

Dataset:: GDS2251
Platform:: GPL570
4 Samples

Download data

Series

Accession:: GSE3280

ID:: 200003280

Select item 225110.

Myeloid leukemia cell lines

Comparison of myeloid leukemia cells to normal monocytes. Transcriptional status of each gene compared to its CpG methylation state. The methylation of CpG islands is associated with transcriptional repression and, in cancer, leads to the abnormal silencing of tumor suppressor genes.

Organism:: Homo sapiens

Type:: Expression profiling by array, count, 4 cell line, 2 disease state sets

Platform:: GPL570
Series:: GSE3280
4 Samples

Download data

DataSet

Accession:: GDS2251

ID:: 2251

Select item 20001055211.

Genome wide expression analysis in AtT-20 cells following Dnmt1 knockdown

(Submitter supplied) Efficient and sustained knockdown of DNMT1 transcript and protein was achieved using a consecutive transfection protocol in the mouse pituitary adenoma cell line, AtT-20. Genome wide microarray analysis identified 91 transcripts that were significantly differentially expressed relative to cells treated with a non-targeting control. Keywords: Differential expression

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1261
6 Samples

Download data: CEL, CHP

Series

Accession:: GSE10552

ID:: 200010552

Select item 20004176012.

Gene expression signatures in a human bladder cancer cell line SW780 transfected with miR-137 precursor molecule

(Submitter supplied) To clarify the effect of miRNAs, we carried out a gene expression microarray analysis of SW780 cells transfected with a miR-137 precursor or a negative control. We found that 1,326 probe sets (1,016 unique genes) were downregulated (>2-fold) by ectopic miR-137 expression, including the previously reported miR-137 target genes CDK6, CDC42 and AURKA. Moreover, Gene Ontology analysis revealed that genes related to the cell cycle were significantly enriched among the affected genes.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL13607
2 Samples

Download data: TXT

Series

Accession:: GSE41760

ID:: 200041760

Select item 20001310513.

Coordinated regulation of cell cycle transcripts by p53-inducible microRNAs, miR -192 and -215

(Submitter supplied) Cell cycle arrest in response to DNA damage is an important anti-tumorigenic mechanism. microRNAs (miRNAs) were shown recently to play key regulatory roles in cell cycle progression. For example, miR-34a is induced in response to p53 activation and mediates G1 arrest by down-regulating multiple cell cycle-related transcripts. Here we show that genotoxic stress promotes the p53-dependent up-regulation of the homologous miRNAs, miR -192 and miR-215. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL4372
6 Samples

Download data

Series

Accession:: GSE13105

ID:: 200013105

Select item 20001623914.

Genes regulated by miR-181c

(Submitter supplied) We found frequently down-regulation of microRNA-181c in human gastric cancer cases. To identify the potential target of miR-181c, we introduced miR-181c into a gastric cancer cell line KATO-III　and analyzed significant changes of gene expression which was induced after introducing miR-181c. Keywords: dose response

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL6480
1 Sample

Download data: TXT

Series

Accession:: GSE16239

ID:: 200016239

Select item 20001600615.

MicroRNAs regulated by DAC

(Submitter supplied) Aberrant expression of microRNA (miRNA) has been reported in various cancers. To clarify the role of miRNA in gastric carcinogenesis, we performed miRNA microarray analysis and investigated expressional changes of miRNAs in a 5-aza-2'-deoxycytidine (DAC)-treated gastric cancer cell line, KATO-ІІІ.

Organism:: Rattus norvegicus; Mus musculus; Homo sapiens

Type:: Non-coding RNA profiling by array

Platform:: GPL5106
2 Samples

Download data: TIFF, TXT

Series

Accession:: GSE16006

ID:: 200016006

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003232316.

Screening for Epigenetically Masked Genes in Colorectal Cancer using 5-aza-2’-deoxycytidine treatment, Microarray and Gene Expression Profile

(Submitter supplied) Unearthing of silenced genes in colorectal cancer (CRC) is of great importance. We employed oligonucleotide microarray to find changes in global gene expression of five CRC cell lines. These were analyzed before and after treatment with the 5-aza-2'-Deoxycitidine. Expression of the responding genes was integrated with gene expression profiling generated by microarray analysis of matched colorectal tissue samples. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Datasets:: GDS4382 GDS4397
Platform:: GPL570
44 Samples

Download data: CEL

Series

Accession:: GSE32323

ID:: 200032323

Select item 439717.

5-aza-2’-deoxycytidine effect on colorectal cancer cell lines

Analysis of colorectal cancer (CRC) cell lines treated with 5-aza-2’-deoxycytidine (5-aza-dC). 5-aza-dC, a DNA methylation inhibitor, was used to reactivate silenced genes in the CRC cell lines. Results provide insight into the molecular mechanisms underlying epigenetic alterations in CRC.

Organism:: Homo sapiens

Type:: Expression profiling by array, transformed count, 2 agent, 5 cell line sets

Platform:: GPL570
Series:: GSE32323
10 Samples

Download data: CEL

DataSet

Accession:: GDS4397

ID:: 4397

Select item 438218.

Colorectal cancer tumors

Analysis of paired colorectal cancer (CRC) tumors and adjacent non-cancerous tissues. Colorectal cancer is a worldwide public health problem. Results provide insight into the molecular mechanisms underlying CRC carcinogenesis.

Organism:: Homo sapiens

Type:: Expression profiling by array, transformed count, 17 individual, 2 tissue sets

Platform:: GPL570
Series:: GSE32323
34 Samples

Download data: CEL

DataSet

Accession:: GDS4382

ID:: 4382

Select item 20000768719.

Methylation-silenced genes in colorectal cancer cell lines

(Submitter supplied) Using an oligonucleotide array, we undertook a genome-wide search for genes upregulated following treatment with a demethylating agent in two CRC cell lines. Promoter methylation status was determined in 12 CRC cell lines and 11 CRC tissues. After the treatment, 350 genes were upregulated 1.5 fold or more. Six genes (PAGE-5, VCX, MAEL, GAGED2, UCHL1, and GAGE7), which contained putative 5'CpG islands in their promoter regions, were confirmed to be silenced in CRC cell lines. more...