Similar studies for GEO DataSets (Select 200029900) - GEO DataSets

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Items: 20

Select item 2000299001.

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 2000297602.

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 2000104553.

Genes regulated by miR-34b/c and DAC

(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 2000417604.

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 2000336235.

Epigenetic regulation of miRNA in CLL [MCIp_hsa_miRNA_v3b]

(Submitter supplied) Genome-wide profiling of DNA methylation 35 kb upstream and 5 kb downstream of microRNAs in 24 CLL patients and B cells of 2 healthy donors versus a pool of 10 healthy donors.

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL14805
26 Samples

Download data: TXT

Series

Accession:: GSE33623

ID:: 200033623

Select item 2000333476.

Epigenetic regulation of miRNA in CLL

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

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by genome tiling array; Methylation profiling by genome tiling array

Platforms:: GPL14805 GPL14804
42 Samples

Download data: TXT

Series

Accession:: GSE33347

ID:: 200033347

Select item 2000333057.

Epigenetic regulation of miRNA in CLL [ChIP_hsa_miRNA_v3b]

(Submitter supplied) Genome-wide profiling of histone 3 lysine 4 trimethylation is used for identification of microRNA transcriptional start sites. Various cell types allow a broad range detection of putative promoters rather independent of tissue specific expression patterns. These data are used for identification of aberrant epigenetic regulation at the respective regions.

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by genome tiling array

Platform:: GPL14805
11 Samples

Download data: TXT

Series

Accession:: GSE33305

ID:: 200033305

Select item 2000333048.

Epigenetic regulation of miRNA in CLL [ChIP_hsa_miRNA_v2]

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by genome tiling array

Platform:: GPL14804
5 Samples

Download data: TXT

Series

Accession:: GSE33304

ID:: 200033304

Select item 2000201379.

Gene expression in unfertilized eggs and the MBT stage of zebrafish embryos

(Submitter supplied) Very little is known on the nature of epigenetic states in developing zebrafish despite its growing importance as a model organism in developmental biology. We report histone modifications on promoters of pluripotency genes in zebrafish embryos at the mid-late blastula transition (MBT+) stage. We identify three classes of expressed genes based on these profiles: (1) those with a promoter occupied by marks of active genes without any repressive marks; (2) those co-occupied by both activating and repressive modifications; of these genes, klf4 was notably found to be mosaically expressed in the embryo, possibly accounting for this epigenetic pattern; (3) those occupied by repressive marks with, surprisingly, little not acetylated H3K9 or H4. more...

Organism:: Danio rerio

Type:: Expression profiling by array

Platform:: GPL9998
7 Samples

Download data: TXT

Series

Accession:: GSE20137

ID:: 200020137

Select item 20001055210.

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 20000647411.

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 20003868512.

Normal and Cancerous Prostate Cells

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

Organism:: Homo sapiens

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

Platforms:: GPL10999 GPL11154
12 Samples

Download data: BW

Series

Accession:: GSE38685

ID:: 200038685

PubMed Similar studies

Select item 20003868413.

Chromatin Looping of Normal and Cancerous Prostate Cells

(Submitter supplied) Mapping the locations of the DNA binding protein CTCF genome-wide to assess its colocalisation with expression domain boundaries.

Organism:: Homo sapiens

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

Platform:: GPL11154
2 Samples

Download data: BW

Series

Accession:: GSE38684

ID:: 200038684

PubMed Similar studies SRA Run Selector

Select item 20003868314.

H3K27me3 Marks in Normal and Cancerous Prostate Cells

(Submitter supplied) The histone modification H3K27me3 is representative of silenced regions of the genome. Changes between the normal and cancer state were investigated.

Organism:: Homo sapiens

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

Platform:: GPL10999
2 Samples

Download data: BW

Series

Accession:: GSE38683

ID:: 200038683

PubMed Similar studies SRA Run Selector

Select item 20003868215.

H3K4me3 Marks in Normal and Cancerous Prostate Cells

(Submitter supplied) H3K4me3 ChIP-seq was done to examine transcription start sites in a genome wide manner, and compare results to CAGE-seq

Organism:: Homo sapiens

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

Platform:: GPL11154
2 Samples

Download data: BW

Series

Accession:: GSE38682

ID:: 200038682

PubMed Similar studies SRA Run Selector

Select item 20003867916.

DNA Methylation in IMR90 cells

(Submitter supplied) DNA methylation was measured by MBD2 enrichment of DNA fragments in IMR90. A statistical model was developed to estimate absolute methylation levels, and compared to whole genome bisulfite sequencing results (Lister, R. et al. (2009) Human DNA methylomes at base resolution show widespread epigenomic differences. Nature)

Organism:: Homo sapiens

Type:: Methylation profiling by high throughput sequencing

Platform:: GPL11154
1 Sample

Download data: BW

Series

Accession:: GSE38679

ID:: 200038679

PubMed Similar studies SRA Run Selector

Select item 20003867717.

Mapping of Transcription Start Sites of Normal and Cancerous Prostate Cells

(Submitter supplied) Capped analysis of gene expression (CAGE) sequencing was done on a normal and a cancer cell line to examine how promoter usage changes between these two states.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL10999
2 Samples

Download data: BW

Series

Accession:: GSE38677

ID:: 200038677

PubMed Similar studies SRA Run Selector

Select item 20003867618.

Expression Analysis of Normal and Cancerous Prostate Cells

(Submitter supplied) Strand-specific RNA sequencing was done on a normal and a cancer cell line to examine how isoforms are used differently between these two states.