Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of rat NG108 neuroblastoma cell line treated with mefloquine or DMSO

ABSTRACT: This data series describes expression data for eight paired, control and treated cell cultures obtained on independent occasions. NG108 rat neuronal cell cultures were exposed to either 0.25% DMSO (control) or 4400 ng/ml mefloquine (treated) for two hours. Validation: Modulation of the following transcripts by mefloquine was confirmed by semi-quantitative RT-PCR: U30186, X63594cds_g_at, X63594cds_at, X17163cds_s_at, rc_AI175959 and rc_AA945867 (unpaired, unequal variance, one tailed t-test, p < 0.05).

ORGANISM(S): Rattus norvegicus

SUBMITTER: Geoffrey Dow

PROVIDER: E-GEOD-39 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Effect of sample size and P-value filtering techniques on the detection of transcriptional changes induced in rat neuroblastoma (NG108) cells by mefloquine.

Dow Geoffrey S GS

Malaria journal 20030227

<h4>Background</h4>There is no known biochemical basis for the adverse neurological events attributed to mefloquine. Identification of genes modulated by toxic agents using microarrays may provide sufficient information to generate hypotheses regarding their mode of action. However, this utility may be compromised if sample sizes are too low or the filtering methods used to identify differentially expressed genes are inappropriate.<h4>Methods</h4>The transcriptional changes induced in rat neurob ...[more]

PMID: 12675948

Similar Datasets

Mefloquine treatment of NG108 rat neuronal cells

Project description:This data series describes expression data for eight paired, control and treated cell cultures obtained on independent occasions. NG108 rat neuronal cell cultures were exposed to either 0.25% DMSO (control) or 4400 ng/ml mefloquine (treated) for two hours. Validation: Modulation of the following transcripts by mefloquine was confirmed by semi-quantitative RT-PCR: U30186, X63594cds_g_at, X63594cds_at, X17163cds_s_at, rc_AI175959 and rc_AA945867 (unpaired, unequal variance, one tailed t-test, p < 0.05). Keywords: other

2002-11-19 | GSE39 | GEO

Meiotic Consequences of Aneuploidy: Mouse Models of Down Syndrome

Project description:Aneuploidy, and especially the presence of unpaired chromosomal axes during meiosis, can cause infertility. However, it is not known if extra, unpaired autosomal chromosome segments acquire characteristic protein modifications and undergo transcriptional silencing (meiotic silencing of unpaired chromatin, or MSUC) similar to the unpaired regions of the X and Y chromosomes during spermatogenesis. We used three mouse models of Down syndrome, involving either an extra chromosome or translocation trisomy, to test requirements and consequences of meiotic protein modification and gene silencing in spermatocytes. These models reveal that copy number alone is not sufficient for up-regulation of genes in the trisomic interval, and that MSUC-promoting modifications are not sufficient for down-regulation of genes that reside in unpaired chromatin during meiosis. The position of a trisomic region relative to a centromere, the pairing status of the centromere, and the physical extent of the unpaired chromosomal region all affected assembly of meiotic protein modifications typical of MSUC. One key determinant to modification of unpaired chromatin and infertility in trisomy male mice appears to be proximity of unpaired chromatin to a centromere. Furthermore, the presence of an extra, unpaired centromere, but not translocation trisomy, causes global misregulation of transcription in spermatocytes. Thus, neither trisomy per se, nor chromatin modifications of unpaired chromosomal segments, have major effects on gene expression or meiotic success, but an intact unpaired chromosome has profoundly negative effects on meiotic gene expression.

2008-10-11 | GSE13123 | GEO

Bradyrhizobium sp. WSM 4400

Project description:Bradyrhizobium sp. WSM 4400 Genome sequencing and assembly

| PRJNA717299 | ENA

5% dimethyl sulfoxide (DMSO) and pentastarch improves cryopreservation of cord blood cells over 10% DMSO.

Project description: Not available

| S-EPMC6525963 | biostudies-literature

Expression data from AML1-ETO (AE)-expressing murine bone marrow (BM) cells treated with retinoids

2012-12-25 | GSE39883 | GEO

Transcriptome of mouse primary muscle cultures upon dystrophin knockdown by RNAi.

Project description:Dystrophin was knocked down in primary muscle cultures prepared from C57Bl/10 neonate mice using siRNA targeting dystrophin. Also in parallel, primary muscle cultures treated with siRNA targting luciferase were used as controls. The experiment was designed so that the same cell populations were used for both test and control conditions. This helped avoid the heterogeneity associated with the previous studies where test and control cell populations were non-identical. The experiment resulted in a clear transcriptome of dystrophin deficiency and demonstrated dystrophin as a major organizer of myogensis. Moreover, several interesting experimental targets were identified which can potentially open new lines of investigations. 18 primary muscle cell cultures were prepared on 4 occasions. 7 cultures were treated with siRNAs targeting dystrophin, 7 received siRNA targeting firefly GL2 luciferase (treatment controls) and 4 remained untreated (untreated controls). RNAs were extracted 48 hours after differentiation induction for expression profiling analysis.

2010-12-21 | E-GEOD-20548 | biostudies-arrayexpress

The acute effects of growth hormone in adipose tissue involve suppression of anti-lipolytic signals

Project description:Human subjects (n=9) underwent acute intravenous exposure to GH vs. saline on separate occasions with measurement of serum FFA for 2 h, and GH signaling and gene expression (gene array and PCR)

2020-01-31 | GSE124935 | GEO

Hydrogenation of CO2 to Formic Acid with a Highly Active Ruthenium Acriphos Complex in DMSO and DMSO/Water.

Project description: Not available

| S-EPMC5113777 | biostudies-literature

Expression data from AML1-ETO (AE)-expressing murine bone marrow (BM) cells treated with retinoids

Project description:AE-expressing murine BM cells treated with all-trans retinoic acid (ATRA) in semi-solid methycellulose-based cultures show an increase in self-renewal capacity whilst treatment with a specific RARa agonist NRX195183 reduces their clonogenicity. Gene expression analysis was performed to further investigate the molecular mechanisms underlying these observations. Upregulated gene sets were identified in the ATRA-treated AE BM cells. 3 C57Bl/6 AML1-ETO-stop/+/Mx-Cre+ mice (#D203, 218 and 220) were treated with polyI:C to excise the stop codon allowing AML1-ETO expression. 2-4 weeks following completion of polyI:C administration, mice were euthanised and BM cells harvested. BM cells were cultured in semi-solid methylcellulose assays with cytokines for 2 weeks; then cells were harvested, pooled and replated in suspension cultures containing cytokines and the respective treatments - DMSO (control), ATRA and the specific RARa agonist NRX195183. At the 8 hour (8H) and 24 hour (24H) timepoints, cells were harvested for RNA extraction and processing.

2012-12-25 | E-GEOD-39883 | biostudies-arrayexpress

IFNα-induced gene expression in immortalized pig-tailed macaque CD4+ lymphocytes

Project description:In order to identify IFNα-induced host factor(s) that might inhibit replication of unadapted chimeric SIV/HIV-1 viruses (SHIVs), we measured IFNα-induced gene expression in immortalized pig-tailed macaque (Ptm) CD4+ lymphocytes. Triplicate cultures of Ptm lymphocytes were left untreated or treated with 1000 U/ml of IFNα. Twenty-four hours later, RNA was isolated, and RNA-seq libraries were prepared for sequencing. A total of 198 genes were found to be significantly differentially expressed (|logFC| ≥ 0.585 & FDR 5%) upon IFNα treatment. 147/198 genes were found to be significantly upregulated and 51/198 genes were found to be significantly downregulated regulated upon IFNα treatment.

2019-06-24 | GSE126594 | GEO

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