Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Identifications of genes involved in Friedreich Ataxia pathophysiology

ABSTRACT: We identified a synthetic siRNA (B11) that improves the growth of primary human fibroblasts derived from Friedreich ataxia (FA) patient. A control siRNA, in which one base pair of B11 is mutated (Mut1), was associated with a partial loss of phenotype. This experiment compares the transcriptome of primary FA fibroblasts transfected with B11 siRNA versus the transcriptome of FA cells transfected with Mut1.

INSTRUMENT(S): GeneChip 3000 7G scanner

ORGANISM(S): Homo sapiens

SUBMITTER: Robert Wilson

PROVIDER: E-MTAB-4699 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Effects of Ars2 or DGCR8 siRNA on gene expression

Project description:Ars2 is a component of the nuclear cap-binding complex that is required for cellular proliferation and contributes to microRNA biogenesis. Arrays were performed to determine the repertoire of genes that change following knock-down of Ars2. Knock-down of DGCR8 was also performed to determine which changes in Ars2 knock-down cells resulted from defects in microRNA expression. 9 samples were analyzed including: three biological replicates of control siRNA-transfected HeLa cells, HeLa cells transfected with three independent siRNAs targeting Ars2, or HeLa cells transfected with three independent siRNAs targeting DGCR8.

2012-02-01 | E-GEOD-34679 | biostudies-arrayexpress

ZNF-mediated resistance to imatinib mesylate in gastrointestinal stromal tumor

Project description:siRNA knock-down of ZNF genes determined to impact gastrointestinal stromal tumor response to imatinib were used to determine functional significance of ZNFs and identify key targets related to imatinib resistance. exploratory array design to identify candidate effector genes for targeted study

2013-08-01 | E-GEOD-40080 | biostudies-arrayexpress

Synthesis of 2'-formamidonucleoside phosphoramidites for suppressing the seed-based off-target effects of siRNAs [RNA-seq]

Project description:To investigate effects of siRNA with 2'-formamidonucleoside phosphoramidites (2'-FA) modifications on genome-wide off-target, we analyzed gene expression profile of HeLa cells transfected by their siRNAs.

2024-09-30 | GSE274426 | GEO

Transcription profiling by array of mRNAs regulated by Ars2 and DGCR8

Project description:siRNAs were used to deplete either Ars2 or DGCR8 proteins from cells and were compared to control siRNA treated cells.

2012-02-01 | E-MTAB-899 | biostudies-arrayexpress

Lipid accumulation, mitochondrial dysfunction and altered autophagy in Smith-Magenis syndrome patient-derived cells

Project description:Fibroblasts obtained from a SMS patient and her healthy sibling were grown in fibroblast medium. Cells were collected and RNA was extracted. In order to comprehend how the single point mutation in RAI1 gene could influence gene expression between two donors with a similar genetic background we performer the transcriptomic analysis.

2022-11-21 | E-MTAB-10118 | biostudies-arrayexpress

Synthesis of 2'-formamidonucleoside phosphoramidites for suppressing the seed-based off-target effects of siRNAs

2024-09-30 | GSE274299 | GEO

Effects of Ars2 or DGCR8 siRNA on gene and microRNA expression

Project description:This SuperSeries is composed of the following subset Series: GSE34679: Effects of Ars2 or DGCR8 siRNA on gene expression GSE34680: Effects of Ars2 or DGCR8 siRNA on microRNA expression Refer to individual Series

2012-02-01 | E-GEOD-34681 | biostudies-arrayexpress

A high throughput pipeline for antibody validation

Project description:Western blotting (WB) is widely used to test antibody specificity, but the assay has low throughput and precision. Here we show that an inverted version of WB allows parallel readout with antibody arrays, shotgun mass spectrometry (MS) and immunoprecipitation followed by MS (IP-MS). The pipeline provides means for large-scale implementation of concepts proposed by an international working group on antibody validation (IWGAV).

2018-07-26 | PXD010510 | Pride

Impact of miR-132 and miR-381 on endogenous forskolin responsive CREB targets in HEK293T cells

Project description:Expression profiling of HEK293T cells transfected with miR-neg (negative control), miR-132 or miR-381 mimics and treated with forskolin for 0, 1 or 4hrs. HEK293T cells were reverse transfected with the respective miRNA mimics. 72hrs post-transfection, cells were treated with forskolin for 0, 1 or 4hrs. Total RNA was then extracted. Expression profiling was carried out with Affymetrix arrays. Experiment was performed in duplicate. Total of 18 samples.

2011-07-01 | E-GEOD-24812 | biostudies-arrayexpress

Functions of BET proteins in GATA1-mediated transcription [expression array]

Project description:Role of bromodomain and extra-terminal motif (BET) proteins in GATA1-null erythrolbasts (G1E) and in differentiation induced by activation of conditional GATA1 tested by addition of BET inhibitor JQ1 (250nM) Array protocols were conducted as described in the Ambion WT Expression Manual and the Affymetrix GeneChip Expression Analysis Technical Manual by the University of Pennsylvania Molecular Profiling Core. Two-factor design (+/- JQ1, +/- GATA1). External RNA spike-in controls (ERCC controls, Ambion) added to each sample in proportion to cell number at the time of RNA harvest.

2015-02-23 | E-GEOD-62709 | 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