Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

42 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Microarray analysis in wild type and hy5 plants

ABSTRACT: Gene expression profiles between wild type (WT) and hy5 were compared to know HY5-targets. Gene expression profiles between wild type (WT) and hy5 were compared to known HY5-targets.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Yukio Kurihara

PROVIDER: E-GEOD-62119 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Microarray analysis in Arabidopsis seedlings treated with lasalocid sodium.

Project description:Gene expression profile in Arabidopsis seedlings treated with lasalocid sodium was compared with that in non-treated seedlings. Gene expression profile in Arabidopsis seedlings treated with lasalocid sodium was compared with that in non-treated seedlings.

2016-03-25 | E-GEOD-79562 | biostudies-arrayexpress

Identifying genes regulated by miR-490-3p

Project description:To identify the direct target of miR-490-3p, we used whole genome microarray expression profiling to screen for genes potentially regulated by the microRNA. AGS cells were transfected with control mimics or miR-490-3p mimics and gene expression was determined 72 hours after transfection.

2014-10-18 | E-GEOD-62453 | biostudies-arrayexpress

MiRNA expression arrays from esophageal squamous cell carcinomas with different neoadjuvant chemoradiotherapy response

Project description:Preoperative chemoradiotherapy (CRT) followed by surgery has been proved to improve esophageal squamous cell carcinoma (ESCC) patients’ survival in comparison with surgery alone. However, the outcomes of CRT are heterogeneous, and no clinical or pathological method could predict CRT response. We aim to identify miRNA markers for ESCC CRT-response prediction through miRNA expression analyses. MiRNA expression analyses were performed on pretreatment cancer biopsies from 28 ESCCs who received neoadjuvant CRT and surgery using Agilent human miRNA microarrays based on miRBase (release 18.0) GeneChip®.

2015-07-27 | E-GEOD-59974 | biostudies-arrayexpress

Expression data in response to pepper leaf curl virus (PepLCV) infection in Chilli pepper at three leaf stage

Project description:A comparative study to determine the pepper leaf curl virus resistance machanism between resistant and susceptible genotypes at three leaf stage. To study the molecular mechanism of pepper leaf curl virus (PepLCV) resistance, pepper plants were exposed to PepLCV through artificial inoculation and hybridization on Agilent tomato microarrays. The expression analysis of PepLCV resistant and susceptible genotypes after artificial inoculation at three leaf stage showed that the resistance against PepLCV is due to sum of expression of hundreds of genes at a particular stage. Tomato microarrays consisting of 43,803 probes were used for whole genome expression analysis of chilli peppers for resistance against PepLCV. Transcripts from the leaves of resistant (BS-35) and susceptible plants (IVPBC-535) were compared in response to PepLCV inoculation at three leaf stage.

2012-10-11 | E-GEOD-41131 | biostudies-arrayexpress

Gene expression profiling of human NK cells

Project description:In order to identify genes expression in different types of human NK cells, we sorted normal decidual NK cells during the first trimester, NK cells from peripheral blood and cord blood for analysis using the Agilent Whole Human Genome Microarray. Samples were collected from healthy adult donors after obtaining informed conset according to the Ethics Committee of the University of Science & Technology of China. CD56+CD3- NK cells have been sorted from normal decidua, cord blood and peripheral blood by FACS Aria. Then Whole Human Genome Microarray was employed as a discovery platform to identify genes differentially expressed in each types of NK cells.

2013-02-10 | E-GEOD-24268 | biostudies-arrayexpress

Gene expression profiles using microarrays in diaphragm of normal Beagle dogs and Beagle-based canine muscular dystrophy (CXMDJ) before and 1 hour after initial respiration.

Project description:Canine muscular dystrophy (CXMDJ) is a dog model of the lethal X-linked muscle disorder Duchenne muscular dystrophy (DMD), which is caused by loss of dystrophin. Gene expression profile was analyzed in the diaphragm muscles of normal Beagle dogs and CXMDJ before and 1 hour after initial respiration. Diaphragm were isolated from four groups (normal Beagle dogs and CXMDJ before and 1 hour after initial respiration). Total RNA was purified and prepared to Agilent-021193 Canine (V2) Gene Expression Microarray (Feature Number version) (Agilent Technologies) using Agilkent reagents and protocols. The mRNA levels of differential expressed genes from gene chip analysis were confirmed by quantitative real-time PCR assay.

2012-10-31 | E-GEOD-32460 | biostudies-arrayexpress

Transcriptome analysis of Atasf1 mutants in comparison with wild type.

Project description:ASF1 is a conserved histone chaperone with affinity to histone H3-H4. Arabidopsis thaliana genome encodes two ASF1 homologues, which play redundant roles in S-phase progression and cell proliferation in plant development. Here, in an attempt to obtain the knowledge of ASF1 role in transcriptional regulation, we perform the transcriptome analysis of each asf1 single mutant (Atasf1a and Atasf1b) as well as Atasf1ab double mutant in comparison with wild type (WT). 12-day-old seedlings of wild-type (WT), each single mutants and double mutant grown in normal growth condition were used for RNA extraction and microarray. Duplicate samples were analyzed.

2013-12-31 | E-GEOD-48854 | biostudies-arrayexpress

ELONGATED HYPOCOTYL (HY5) AND HY5 HOMOLOG (HYH) maintain shade avoidance suppression in sunlight

Project description:We show that longer-term inhibition of shade avoidance in Arabidopsis is sustained by ELONGATED HYPOCOTYL 5 (HY5) and HY5 HOMOLOG (HYH) which, together, regulate transcriptional reprogramming of genes involved in hormone signalling and cell wall modification.

2023-06-07 | GSE192469 | GEO

Gene expression signatures in miR-29c overexpressed gastric cancer cells.

Project description:To explain the mechanism that miR-29c affects the cell proliferation, we attempted to identify the miR-29c target genes in gastric carcinoma. The expression profiles in MKN45, MKN7 and MKN74 cells transfected with miR-29c oligo or Negative control oligo were obtained from microarray analysis. Then, the genes differentially expressed (Fold change >= 2.0) in miR-29c-transfected cells compared with negative control-transfected ones were identified in each cell lines, respectively. The differentially expressed genes shared among 3 cell lines were identified as the candidates for miR-29c targets. Human gastric cancer cell lines, MKN45, MKN74 and MKN7 were transfected with miR-29c oligo or negative control oligo (n=2) (Ambion). At 24h after, total RNA was extracted and microarray analysis was performed. The genes with common expression changes among three cell lines miR-29c-transfected were identified as the candidates for miR-29c targets.

2013-03-27 | E-GEOD-38581 | biostudies-arrayexpress

Development of gene expression signatures for senecionine exposure

Project description:Senecionine is among the most well-studied pyrrolizidine alkaloids, which have caused intense and lasting attention for their significant hepatotoxicity. To develop gene expression approach to senecionine exposure, we have employed whole genome microarray expression profiling as a discovery platform to identify genes with the potential to be biomarkers after senecionine exposure. Rat liver tissues after 36 h of senecionine treatment (i.g., 35 mg/kg body weight) were collected and analyzed comparing with control samples (i.g., sodium chloride solution). Differentially expressed genes were identified through Fold-change filtering and subjected to GO term using gene ontology project (http://www.geneontology.org/) to uncover the co-expression network on the basis of biological process and molecular function. By setting the fold change at M-bM-^IM-% 2 and p value M-bM-^IM-$0.05, 46 down-regulated signaling pathways and 50 up-regulated pathways were found, including bile secretion, primary bile acid biosynthesis, and ABC transporters. Expression of 13 genes referred to bile acids metabolism was quantified from the same tissue samples by real-time PCR, confirming senecionine exposure after 36 h could result in compromised bile acid homeostasis. Senecionine exposure induced gene expression in rat liver was measured at 36 h after exposure to that of control sample. Three tissue samples from each group were pooled as a mixture. And two independent experiments were performed (control and 36 h after senecionine exposure).

2013-02-08 | E-GEOD-44144 | 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