Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

31 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Indirect expression microarray from 5 pairs of tissues from colorectal cancer patients

ABSTRACT: 5 colorectal cancer (CRC) tissues and 5 paired non-tumor tissues from CRC patients were indirectly compared using a 17K cDNA microarray. The total RNA from each tissue was labeled with Cy5, and the total RNAs from 11 human cell lines were labeled with Cy3 as the reference.

ORGANISM(S): Homo sapiens

SUBMITTER: sunwoo Lee

PROVIDER: E-GEOD-19659 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Indirect expression microarray from 5 pairs of tissues from colorectal cancer patients

Project description:5 colorectal cancer (CRC) tissues and 5 paired non-tumor tissues from CRC patients were indirectly compared using a 17K cDNA microarray.

2011-12-27 | GSE19659 | GEO

Expression microarray with 5-aza-2'-deoxycytidine-treated Caco-2 cells

Project description:5-aza-2'-deoxycytidine (DAC) treated and untreated Caco-2 cells were compared using an expression microarray. Total RNA from untreated Caco-2 cells was labeled with Cy3, and total RNA from DAC-treated Caco-2 cells was labeled with Cy5.

2011-12-27 | E-GEOD-19660 | biostudies-arrayexpress

Identification of GABRA1 and LAMA2 as new DNA methylation markers in colorectal cancer

Project description:This SuperSeries is composed of the following subset Series: GSE19659: Indirect expression microarray from 5 pairs of tissues from colorectal cancer patients GSE19660: Expression microarray with 5-aza-2'-deoxycytidine-treated Caco-2 cells Refer to individual Series

2011-12-27 | E-GEOD-26799 | biostudies-arrayexpress

Effect of rimonabant on gene expression of visceral and subcutaneous adipose tissues: high fat diet

Project description:Mice were fed for 6 months with a normal chow (NC) or a high fat diet (HFD). After 6 months of diet, high fat fed mice with Low, Medium and High body weight, but with similar glucose intolerance, were selected. These selected mice as well as NC mice were then treated with Rimonabant or Vehicle for 1 month. After treatment, mice were sacrificed and visceral and subcutaneous adipose tissues were collected and immediately frozen in liquid nitrogen. Total RNA from each sample was further extracted, purified, quality-controled before and after amplification, Cy5-labeled and co-hybridized with a Cy3-labeled mouse Universal Reference total RNA on the mouse 17K microarray. Keywords: diet response, pharmacological response Each individual RNA sample was hybridized with a mouse Universal Reference Total RNA

2008-12-14 | E-GEOD-11790 | biostudies-arrayexpress

Effect of High Fat Diet on gene expression of liver from obesity-prone (C57BL/6J) and obesity-resistant (A/J) mice

Project description:Mice were fed for 2, 10 or 30 days with a normal chow (NC) or a high fat diet (HFD). At each time point, mice were sacrificed and liver samples were collected and immediately frozen in liquid nitrogen. Total RNA from each sample was further extracted, purified, quality-controled before and after amplification. Cy3-labeled RNA from individual liver sample was co-hybridized with a Cy5-labeled pool of RNA on the mouse 17K microarray. Keywords: diet response, time course, mouse strains For a given time point, each individual RNA sample was hybridized with a pool of RNA from 6 mice

2009-08-09 | E-GEOD-12409 | biostudies-arrayexpress

Transcription profiling by array of salmon parr brain after exposure to the carbamazepine

Project description:Concerns have arisen recently over the possible environmental effects of human pharmaceuticals. Although acute toxicities are low, the continuous discharge of pharmaceuticals into the aquatic environment, coupled with the fact that such compounds are selected for use on the basis of a strong pharmacological effect, means that sublethal effects on non-target organisms need to be seriously considered. The juvenile stages of Atlantic salmon are present in many northern European rivers which are also used for the discharge of domestic wastewaters likely to contain pharmaceuticals. One year old salmon parr were exposed to an environmentally relevant concentration (5µg·/ L) of the antidepressant drug carbamazepine for five days and changes of mRNA expression in brain tissues were investigated by means of a custom 17k Atlantic salmon cDNA microarray. The TRAITS 17K Atlantic salmon cDNA microarray was employed. A dual-labelled experimental design was employed for the microarray hybridisations. Each experimental cDNA sample (Cy3 labeled) was competitively hybridised against a common pooled-reference sample (Cy5 labeled). The entire experiment comprised 10 hybridisations - 2 states (CBZ exposed / unexposed) × 1 time-point ( at 5 days) × 5 biological replicates (males only). Hybridisations were undertaken concurrently.

2011-08-20 | E-TABM-1065 | biostudies-arrayexpress

To identify novel metastasis-associated gene candidates in colorectal cancer

Project description:A gene expression profiling suggested some gene candidates associated with colorectal cancer (CRC) metastasis, which were validated by qPCR investigation of the mRNA levels in clinical specimens Two-condition experiment, tumor tissue versus the adjacent non-tumor tissue. Biological replicates: 4

2010-10-16 | E-GEOD-24639 | biostudies-arrayexpress

Downregulation of three tumour suppressor genes SLC26A3, DCN and TPM1 in colorectal cancer

Project description:Despite identification of major genes and pathways involved in development of colorectal cancer (CRC) it became obvious that several steps in these pathways might be bypassed by other yet unknown genetic events that lead towards CRC. To improve our understanding of the genetic mechanisms of CRC development we used microarrays to identify novel genes involved in development of CRC. In order to identify possible novel genes involved in the development of colorectal cancer we analysed the expression profile of 16 colorectal cancers. We used dual color approach. Tumour tissue was labeled with Cy5 and corresponding normal tissue was labeled with Cy3. Each array contained at least 4 replicate spots for each gene analysed. Expression was obtained by calculating median from replicate spots. Genes not present in at least 100% of all samples were filtered out. Median value for each gene from 16 arrays was calculated.

2010-06-20 | E-GEOD-14010 | biostudies-arrayexpress

Effect of High Fat Diet on gene expression of liver from obesity-prone (C57BL/6J) and obesity-resistant (A/J) mice

2009-08-09 | GSE12409 | GEO

Detection of Human Viruses from wastewater sewage extracts

Project description:Sewage samples were collected and concentrated for Human and animal viruses. Viruses were cultured on Buffalo Green Monkey Cells (BGMK) and their genomic DNA/RNA were extracted and labeled with Cy3 and Cy5 respectively. Labeled DNA/RNA were hybridized unto the array and signals generated were analyzed to indicate the presence of target viruses. Keywords: Detection of pathogens within environmental sample (Viruses) Environmental viruses were concentrated using organic flocculation with Beef Extract supplemented with glycine. Viruses were concentrated using 2 successive rounds of centrifugation and resuspended in Sodium Phosphate buffer. Viral nucleic acid was extracted, labeled and hybridized unto the microarray to determine the presence of target viruses within the sample.

2008-04-18 | E-GEOD-11195 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data