Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

12 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Identification of genes activated in cancer cells cultured under hypoxia and serum-free condition

ABSTRACT: To identify genes activated under hypoxia (1%O2) and serum-free treatment of a cancer cell line, we performed cDNA microarray analysis with an ovarian cancer cell line, OVSAYO. Cells were cultured under normoxia /hypoxia (1%O2) and serum-plus/serum-minus conditions for 16 hours. Total RNA was isolated for cDNA microarray analysis.

ORGANISM(S): Homo sapiens

SUBMITTER: Shiro Koizume

PROVIDER: E-GEOD-55564 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Identification of genes activated under CoCl2 treatment in an Sp1 dependent manner and under hypoxia without serum condition in an ovarian cancer cell line

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2015-04-01 | E-GEOD-55565 | biostudies-arrayexpress

Ofd2+/-hypoxia

Project description:Investigation of mRNA expression level changes in S. pombeOfd2 (SPAP8A3.02c) deletion strain compared to wild-type strain at both normal oxygen (normoxia) and low oxygen (hypoxia) growth conditions. Four samples in total consisting of two S. pombeyeast strains, wild type (WT) and a gene deleted strain for Ofd2 (SPAP8A3.02c), analysed for gene expression under two growth conditions, normal oxygen (normoxia) and low oxygen (hypoxia). Five micrograms of total RNA from two independent experiments were pooled and mRNA levels were quantified by Roche NimbleGen using the S. pombe 72K array service

2011-08-05 | E-GEOD-31236 | biostudies-arrayexpress

Transcription profiling of human hypoxia exposed normal human esophageal epithelial cells

Project description:To delineate the role of hypoxia in esophageal epithelial biology, we carried out gene array experiments using a non-transformed immortalized diploid human esophageal cell line, EPC2-hTERT (Mol Cancer Res. 2003;1:729-38). Unlike cancer cell lines, EPC2-hTERT has no genetic alterations at early passages that may affect the cellular response to hypoxia. Experiment Overall Design: EPC2-hTERT cells were exposed to moderate (1% O2) hypoxia in experiment 1 (Exp1) or severe (0.2% O2) hypoxia in experiment 2 (Exp2). Normoxia (21% O2) served as a control in both experiments.

2009-09-12 | E-GEOD-17353 | biostudies-arrayexpress

Gene expression profile of HCT116 exposed to chronic hypoxia

Project description:To identify genes involved in survival to prolonged hypoxia we exposed HCT116 to hypoxia for 3 days. Control cells were exposed to normoxic conditions. HCT116 colon cancer cells were serum starved and exposed to hypoxia (1%O2) or normoxia (21%O2) for 3 days.

2013-01-18 | E-GEOD-43608 | biostudies-arrayexpress

Effect of acute and chronic 7% O2 hypoxia on gene expression in the brain of Ngb-null mice

Project description:Effect of acute and chronic 7% O2 hypoxia on gene expression in the brain of Ngb-null

2011-07-01 | E-MTAB-726 | biostudies-arrayexpress

Expression analysis of Edwardsiella ictaluri 93-146 wild type and mutant strains during catfish serum exposure.

Project description:Edwardsiella ictaluri is the causitive agent of enteric septicemia of catfish, one of the most important diseases impacting US catfish industry. The overall objective of this study is to identify E. ictaluri genes required for serum resistance. 4-plex array study using total RNA obtained from wild type and mutant Edwardsiella ictaluri exposed to heat-inactivated catfish serum and normal serum. Each treatment had four biological replica and each plex had two probe sets.

2013-12-15 | E-GEOD-46011 | biostudies-arrayexpress

Widespread variation in transcript abundance within and across developmental stages of Trypanosoma brucei

Project description:Whole genome comparison of RNA levels for both protein coding genes and structural RNAs in five different life cycle stages: in vivo slender bloodstream form, in vivo stumpy bloodstream form, cultured bloodstream form, log-phase procyclic culture form and stationary-phase procyclic culture form RNA from three independent biological replicates from five different life cycle stages were hybridized to Nimblegen arrays (Madison,WI USA) that contained 8 probes per open reading frame and 3 probes per structural RNA spotted three times per array

2010-05-22 | E-GEOD-18049 | biostudies-arrayexpress

ChIP-seq

Project description:Genome wide analysis RNA polymerase II (RNA Pol II) and histone marker H3K4me3 in hypoxia and normoxia using ChIP-seq. Breast cancer cell line (MCF-7) is cultured in normoxic condition (21% O2) and hypoxic condition (0.5%O2) for 16 hours. Immunoprecipitation of RNA Pol II and H3K4me3.

2014-02-10 | E-MTAB-1995 | biostudies-arrayexpress

Expression analysis of RNAi mediated ALPPL2 knockdown in ALPPL2 expressing Panc-1 cells (Panc-1+ve)

Project description:Analysis of differentially expressing genes in whole genome wide analysis of ALPPL2 expressing Panc-1 cells (Panc-1+ve) via siRNA mediated knockdown of ALPPL2 Panc-1 +ve and Panc-1-ve cell lines were generated from Panc-1 cell line based upon its hetergenous binding to aptamer SQ2. Detailed procedure of generation of these cell lines are described in Pooja Dua, Hye Suk Kang, Seung-Mo Hong, Ming-Sound Tsao, Soyoun Kim, and Dong-ki Lee. 2012 Alkaline Phosphatase ALPPL2 is a novel pancreatic carcinoma-associated protein. Cancer Research A four chip study using total RNA recovered from Panc-1+ve cells transfected with siALPPL2-2, siALPPL2-3, siGFP control and Lipofectamine 2000 treatament . Each chip measures 45,033 genes with three 60 mer probe pairs per target.

2012-11-21 | E-GEOD-42427 | biostudies-arrayexpress

Transport of influenza A virus neuraminidase to host cell surface and virus replication are regulated by ARHGAP21 and Cdc42

Project description:Influenza virus neuraminidase (NA), a type II transmembrane glycoprotein, is transported to the virus assembly site at the plasma membrane and is a major viral envelope component that plays a critical role in the release of progeny virions and in determination of host range restriction. Although signals/sequences in NA for translocation, sorting and raft association have been identified, little is known about the host factors that are involved in regulating the intracellular and cell surface transport of NA. In this report, we have investigated the involvement of Rho family GTPases in NA transport to the cell surface. We found that expression of constitutively active or inactive mutants of RhoA or Rac1 did not significantly affect the amount of NA that reached the cell surface. Interestingly, expression of constitutively active Cdc42 or depletion of the Cdc42-specific GAP, ARHGAP21, promoted the transport of NA to the plasma membranes. By contrast, cells expressing shRNA targrting Cdc42 or overexpressing ARHGAP21 exhibited a significant decrease in the amount of cell surface-localized NA. Furthermore, silencing of Cdc42 or ARHGAP21 had significant effects on influenza A virus replication. Together, our results reveal that ARHGAP21 and Cdc42-based signaling regulates the NA transport and thereby impacts virus replication. This microarray experiment was carried out to find out whether Cdc42 and ARHGAP21 expression levels in A549 cell were changed after WSN infection. Total RNAs were extracted from three different groups of A549 cells that had been infected with or without WSN for 10 h, using TRIzol reagent (Invitrogen, Carlsbad, CA). Samples were amplified and labeled using a NimbleGen One-Color DNA Labeling Kit.

2012-04-03 | E-GEOD-32878 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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