Similar studies for GEO DataSets (Select 5377) - GEO DataSets

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Items: 20

Select item 53771.

Folate deficiency effect on methylenetetrahydrofolate reductase MTHFR+/- intestinal neoplasia model: duodenum

Analysis of intestine from MTHFR+/- BALB/c mice fed a low folate diet (0.3mg/kg) for 1 yr. The MTHFR C677T polymorphism is associated with risk for colorectal cancer. Results provide insight into mechanisms underlying the impact of folate and MTHFR deficiency on tumorigenesis.

Organism:: Mus musculus

Type:: Expression profiling by array, transformed count, 2 genotype/variation, 2 protocol sets

Platform:: GPL6246
Series:: GSE34011
8 Samples

Download data: CEL

DataSet

Accession:: GDS5377

ID:: 5377

Select item 2000340112.

Expression data from mouse intestine: BALB/c MTHFR+/+ on control diet vs BALB/c MTHFR+/- on folate deficient diet

(Submitter supplied) Previous studies in our laboratory have shown that low folate diet (control diet with 2mg folate/kg, low folate diet with 0.3mg folate/kg) can induce intestinal tumors in BALB/c mice. We used microarrays to compare MTHFR+/+ BALB/c mice fed control diet and MTHFR+/- BALB/c mice fed low folate diet.

Organism:: Mus musculus

Type:: Expression profiling by array

Dataset:: GDS5377
Platform:: GPL6246
8 Samples

Download data: CEL

Series

Accession:: GSE34011

ID:: 200034011

Select item 2000340103.

Expression data from mouse intestine: C57Bl/6 MTHFR+/- vs BALB/c MTHFR+/-

(Submitter supplied) Previous studies in our laboratory have shown that low folate diet (control diet with 2mg folate/kg, low folate diet with 0.3mg folate/kg) can induce intestinal tumors in BALB/c mice. In addition, we reported that C57Bl/6J mice did not form tumors under the same conditions. We used microarrays to identify the genetic differences between BALB/c and C57Bl/6J mice that promote tumorigenesis in BALB/c mice. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL6246
8 Samples

Download data: CEL

Series

Accession:: GSE34010

ID:: 200034010

Select item 2000209684.

Hepatocyte-nuclear-factor-4a promotes gut neoplasia in mice and protects against the production of reactive oxygen species

(Submitter supplied) Hepatocyte-nuclear-factor-4α (Hnf4α) is a transcription factor that controls epithelial cell polarity and maturation during embryogenesis. Hnf4α conditional deletion during post-natal development results in minor consequences on intestinal epithelium integrity but promotes activation of the Wnt/β-catenin pathway. Here we show that Hnf4α does not act as a tumor suppressor gene but is crucial to promote gut tumorigenesis in mice. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1261
6 Samples

Download data: CEL

Series

Accession:: GSE20968

ID:: 200020968

Select item 2000456165.

p400 binding and Tip60/p400 gene expression regulation in HCT116 cells

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

Organism:: Homo sapiens

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

Platforms:: GPL15975 GPL10191
14 Samples

Download data: PAIR

Series

Accession:: GSE45616

ID:: 200045616

Select item 2000456156.

Expression analysis of HCT116 cells transfected using Tip60 or p400-targetting siRNA

(Submitter supplied) Investigation of whole genome gene expression level changes in HCT116 cells upon knockdown of Tip60 or p400, compared to control siRNA-transfected cells. Two different siRNA directed against Tip60 were used and experiments were done in duplicate. Same for p400-targetting or control siRNA.

Organism:: Homo sapiens

Type:: Expression profiling by genome tiling array

Platform:: GPL10191
12 Samples

Download data: PAIR

Series

Accession:: GSE45615

ID:: 200045615

Select item 2000456147.

Chip-chip from HCT116 cells with p400 antibody

(Submitter supplied) The chromatin remodeller p400 has oncogenic properties that promote early steps of colon cancer. Chromatin immunoprecipitation (ChIP) of p400 together with chromatin profiling by ChIP-on-chip analysis demonstrated that p400 directly binds the chromatin at promoters of p400 target genes.

Organism:: Homo sapiens

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

Platform:: GPL15975
2 Samples

Download data: PAIR

Series

Accession:: GSE45614

ID:: 200045614

Select item 2000007848.

Transcriptional Profiling of the Transition from Normal Intestine to Adenoma in the APC(Min/+) Mouse

(Submitter supplied) Transcriptional Profiling of the Transition from Normal Intestine to Adenoma in the APC(Min/+) Mouse. Tissue was from male 91-days old APC(Min/+) mouse (an animal model for human colon cancer). RNA was purified using Trizol and labeled for hybridization to high density oligonucleotide Affymetrix MG_U74Av2 arrays, using manufacturer protocol. We measured the relative expression level of >12000 genes and ESTs. more...

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL81
12 Samples

Download data

Series

Accession:: GSE784

ID:: 200000784

Select item 2000412169.

Genome-wide profiling of methylation identifies novel targets with aberrant hypermethylation and reduced expression in low-risk myelodysplastic syndromes.

(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:: GPL16100 GPL2040
45 Samples

Download data: CEL, GPR

Series

Accession:: GSE41216

ID:: 200041216

Select item 20004121510.

Methylation profiling of Low-Risk Myelodysplastic Syndromes (MDSs)

(Submitter supplied) Genome-wide expression and methylation profiling identifies novel targets with aberrant hypermethylation and reduced expression in low-risk myelodysplastic syndromes (MDSs). Gene expression profiling signatures may be used to classify the subtypes of Myelodysplastic syndrome (MDS) patients. However, there are few reports on the global methylation status in MDS. The integration of genome-wide epigenetic regulatory marks with gene expression levels would provide additional information regarding the biological differences between MDS and healthy controls. more...

Organism:: Homo sapiens

Type:: Methylation profiling by genome tiling array

Platform:: GPL2040
20 Samples

Download data: GPR

Series

Accession:: GSE41215

ID:: 200041215

Select item 20004113011.

Expression profiling of Low-Risk Myelodysplastic Syndromes (MDSs)

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL16100
25 Samples

Download data: CEL

Series

Accession:: GSE41130

ID:: 200041130

Select item 20000331212.

Expression Changes Relevant for Apoptosis in K562 Cells Co-Treated with Amifostine and Imatinib

(Submitter supplied) We had previously demonstrated an increased proapoptotic effect of Imatinib (STI571) in combination with Amifostine (AMI) in K562 cell line. In this study we used genomic scale gene expression profiling to monitor changes at transcriptional level in K562 cells during the treatment with AMI+STI571. We identified a transcriptional repressor of survival genes, known as BTF, which triggers a pro-apoptotic signal, potentially helpful to overcome the resistance to STI571. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL2829
4 Samples

Download data

Series

Accession:: GSE3312

ID:: 200003312

Select item 20000329413.

Comparative study of gene expression in human colorectal cancer tissues and normal mucosa

(Submitter supplied) The purpose of our study was to better understand the genetic mechanism of oncogenesis for human colorectal cancer and to identify potential new tumour markers of use in clinical practice. Results: Comparing cancerous tissues with normal colonic mucosa we identified 584 known genes (3%) differentially expressed to a significant degree (p<0.001). Many of the transcripts that were more abundant in tumours than in non-neoplastic tissues appear to reflect important events for colon carcinogenesis. more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL2829
24 Samples

Download data

Series

Accession:: GSE3294

ID:: 200003294

Select item 20001950614.

Comparison of murine colonic mucosal gene expression between postanatal day 90 (P90) to postnatal day 30 (P30)

(Submitter supplied) Comparison of murine colonic mucosal gene expression between postanatal day 90 (P90) to postnatal day 30 (P30) by whole genomic expression microarray. Gene expression profiling of colonic mucosal DNA between P90 and P30 mice. Agilent Technologies two-color labelling kit and genomic hybridization protocol was utilized.

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL7202
4 Samples

Download data: TXT

Series

Accession:: GSE19506

ID:: 200019506

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20001803115.

Comparison of murine colonic mucosal DNA from postnatal day 90 (P90) to postnatal day 30 (P30) by MSAM

(Submitter supplied) DNA methylation profiling of colonic mucosal DNA between P90 and P30 mice. 0.5ug of DNA was serially digested with SmaI and XmaI followed by an adaptor ligation and adaptor mediated PCR amplification

Organism:: Mus musculus

Type:: Methylation profiling by genome tiling array

Platform:: GPL9158
2 Samples

Download data: TXT

Series

Accession:: GSE18031

ID:: 200018031

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003701016.

Effect of dietary methyl donor depletion on gene expression in normal colons of ApcMin mice

(Submitter supplied) Expression profiles of normal colons in ApcMin mice that were fed methyl deficient diet for 11 weeks vs controls

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL6885
12 Samples

Download data: TXT

Series

Accession:: GSE37010

ID:: 200037010

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003898317.

Genome-wide analysis of mouse intestinal adenoma identifies early steps in the formation of cancer-specific DNA methylation patterns

(Submitter supplied) Aberrant CpG methylation is a universal trait of cancer cell genomes and can result in epigenetic modulation of gene activity; however, at which stages tumour-specific epigenetic patterns arise is unknown. Here, we analyse the methylome of APCM in mouse intestinal adenoma as a model of intestinal cancer initiation, and inventory a map of over 13,000 adenoma-specific recurrent differentially methylated regions (DMRs). more...

Organism:: Mus musculus

Type:: Methylation profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:: GPL11002
21 Samples

Download data: TXT

Series

Accession:: GSE38983

ID:: 200038983

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20009565618.

Genome-wide DNA methylation profiling reveals cancer-associated changes within early colonic neoplasia

(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

Platform:: GPL16791
71 Samples

Download data: BEDGRAPH

Series

Accession:: GSE95656

ID:: 200095656

PubMed Full text in PMC Similar studies

Select item 20009565419.

DNA methylation analysisof KRAS mutated colorectal tumors and adjacent tissues from cancer patinets and KRAS mutated Aberrant Crypt Foci and matching normal crypts from healthy individuals by using RRBS

(Submitter supplied) Colorectal cancer (CRC) is characterized by genome-wide alterations to DNA methylation that influence gene expression and genomic stability. Less is known about the extent to which methylation is disrupted in the earliest stages of CRC development. In this study we have combined laser-capture microdissection (LCM) with reduced representation bisulfite sequencing (RRBS) to identify cancer associated DNA methylation changes in human aberrant crypt foci (ACF), the earliest putative precursor to CRC. more...