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

Transcription profiling of mice mutant for prCAD vs BALBC after dark adaption or retinal damage to investigate the genomic response to retinal disease and injury.

ABSTRACT: This SuperSeries is composed of the following subset Series:; GSE10528: The retinal transcriptional response to light damage; GSE10535: Retinal transcripts level alteration in the prCAD -/- mouse, a model for retinal degeneration Experiment Overall Design: Refer to individual Series

ORGANISM(S): Mus musculus

SUBMITTER: Amir Rattner

PROVIDER: E-GEOD-10577 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

The genomic response to retinal disease and injury: evidence for endothelin signaling from photoreceptors to glia.

Rattner Amir A Nathans Jeremy J

The Journal of neuroscience : the official journal of the Society for Neuroscience 20050501 18

Regardless of proximal cause, photoreceptor injury or disease almost invariably leads to the activation of Muller cells, the principal glial cells in the retina. This observation implies the existence of signaling systems that inform Muller cells of the health status of photoreceptors. It further suggests that diverse types of photoreceptor damage elicit a limited range of biochemical responses. Using the mouse retina, we show by microarray, RNA blot, and in situ hybridization that the genomic r ...[more]

PMID: 15872101

Similar Datasets

Transcription profiling of prCAD -/- mouse, a mouse model for retinal degeneration

Project description:This experiment was designed to identify transcripts that exhibit changes in abundance in the context of retinal degeneration by comparing transcript levels in adult wild type and prCAD -/- mouse retinas. Experiment Overall Design: Retinas were dissected from ~4 weeks old mice. Retinas from 3 prCAD knockout mice or wild type 129 mice were pooled for each sample and 3 replicate of wild type and mutant samples were analysed.

2008-04-07 | E-GEOD-10535 | biostudies-arrayexpress

Transcription profiling of mouse BALBc albino retinas compared BETWEEN dark adapted AND light damaged animals

Project description:Transcriptional profiles were compared between dark adapted and light damaged BALBc (albino) mouse retinas. Experiment Overall Design: BALBc mice were dark adapted for one week. To produce light damage a subset of the mice were then exposed to 6,000 lux white fluorescent light for 6 hours. Retinas were collected for RNA extraction 24 hours after light damage.

2008-04-07 | E-GEOD-10528 | biostudies-arrayexpress

Transcription profiling of mouse Frizzled4 signaling in cultured retinal endothelial cells

Project description:Transcriptional profiles of Fz4-/- retinal endothelial cells were compared to that of wild type endothelial cells under various culture conditions. The goal was to identify the transcriptional response to Frizzled 4 signaling in cultured retinal endothelial cells. To analyze the Norrin response of WT and Fz4-/- retinal endothelial cells in culture, we co-cultured these cells either with HEK293 cell line that stably expresses Norrin or with control 293 cells. Experiment Overall Design: To isolate the requisite retinal endothelial cell lines, we crossed Fz4-/- and control animals into the Immorto-mouse line in which a gamma interferon responsive H2Kb promoter directs the expression of a temperature sensitive SV40 large T-antigen (Jat et al., 1991). When cultured at 33°C in the presence of gamma interferon, this conditional oncogene system extends the proliferative capacity of a variety of cell types, which can be subsequently analyzed under phenotypically reverting conditions (37°C without gamma interferon). The cell immuno-purification procedure follows that described by Matsubara et al. (2000) and Su et al. (2003). The purified cells were then cultured and passaged at 33°C on dishes coated with 1% gelatin. For RNA preparation, cells were cultured at 37°C in the absence of interferon gamma. For the Matrigel experiments, endothelial cells previously starved for 24 hrs in DMEM with 1% FBS were trypsinized and plated on the Matrigel layer. The cells were incubated in DMEM with 1% FBS for 6 hours at 37°C before harvesting for RNA extraction. For the 293 cell co-culture experiments, endothelial cells were co-cultured with a human embryonic kidney (HEK) 293 cell line that stably expresses Norrin, or with control 293 cells.

2009-10-10 | E-GEOD-16705 | biostudies-arrayexpress

Transcription profiling of mouse cultured retinal endothelial cells - regulation by Norrin-Frizzled4 signaling (Super Series)

Project description:This SuperSeries is composed of the following subset Series:; GSE16691: Transcriptional regulation by Norrin-Frizzled4 signaling in the embryonic yolk sac; GSE16703: Long-term effect on the transcriptome of a decrement in Norrin/Frizzled4/Lrp signaling in retinal endothelial cells; GSE16705: Transcriptional response to Frizzled4 signaling in cultured retinal endothelial cells; GSE16707: Long-term effect on the transcriptome of loss of Frizzled4 signaling in cerebellar endothelial cells Experiment Overall Design: Refer to individual Series

2009-10-10 | E-GEOD-16841 | biostudies-arrayexpress

Transcription profiling of mouse decrement in Norrin/Frizzled4/Lrp signaling in retinal endothelial cells

Project description:To characterize the long-term effect on the transcriptome of a decrement in Norrin/Fz4/Lrp signaling, microarray hybridization was performed with RNA from acutely dissociated and anti-PECAM immunoaffinity-purified adult WT, Fz4-/-, Lrp5-/-, and Norrin- retinal vascular cells. Experiment Overall Design: Retinal endothelial cells from 5-10 adult mice were pooled for each sample, the cell immuno-purification procedure follows that described by Matsubara et al. (2000) and Su et al. (2003). 3 replicates of each mutant and 6 replicates of control wild type animals were analyzed.

2009-10-10 | E-GEOD-16703 | biostudies-arrayexpress

Transcription profiling of mouse ark adapted and light damaged BALBc (albino) retinal pigmented epithelium

Project description:Transcriptional profiles were compared between dark adapted and light damaged BALBc (albino) mouse RPE. Experiment Overall Design: BALBc mice were dark adapted for one week. To produce light damage a subset of the mice were then exposed to 6,000 lux white fluorescent light for 1.5 hours. RPEs were collected for RNA extraction 24 hours after light damage.

2008-10-26 | E-GEOD-13074 | biostudies-arrayexpress

Fz1Fz2 double knock out mouse palate microarray (E13.5)

Project description:The closure of an open anatomical structure by the directed growth and fusion of two tissue masses is a recurrent theme in mammalian embryology, and this process plays an integral role in the development of the palate, ventricular septum, neural tube, urethra, diaphragm, and eye. In mice, targeted mutations of the genes encoding frizzled1 (Fz1) and frizzled2 (Fz2) show that these highly homologous integral membrane receptors play an essential and partially redundant role in closure of the palate and ventricular septum, and in the correct positioning of the cardiac outflow tract. When combined with a mutant allele of the planar cell polarity (PCP) gene Vangl2 (Vangl2Lp), Fz1 and/or Fz2 mutations also cause defects in neural tube closure and mis-orientation of inner ear sensory hair cells. These observations indicate that frizzled signaling is involved in diverse tissue closure processes, defects in which account for some of the most common congenital anomalies in humans. Microdissect E13.5 palates from Fz1-/-;Fz2+/+ and Fz1-/-;Fz2-/- embryos and compare transcript abundances by hybridization to Affymetrix 430 2.0 gene chips Supplementary file below reports fold change data.

2010-09-22 | E-GEOD-24276 | biostudies-arrayexpress

Long-term effect on the transcriptome of loss of Frizzled4 signaling in cerebellar endothelial cells

Project description:Transcriptional profiles of the cerebellar endothelial cells from P16 Fz4-/- animals were compared to their wild type littermate controls. The goal is to characterize the long-term effect on the transcriptome of loss of Fz4 signaling in cerebellar endothelial cells. Endothelial cells were immuno-purification from P16 cerebellum using anti-PECAM antibody coated dynabeads. The cell immuno-purification procedure follows that described by Matsubara et al. (2000) and Su et al. (2003). 3 replicates of both wild type and Fz4-/- cerebellar endothelial cells were analyzed.

2009-10-01 | E-GEOD-16707 | biostudies-arrayexpress

Transcription profiling of mouse embryonic yolk sac from embryos with ectopic Norrin expression compared to wild type littermate controls

Project description:Transcriptional profiles of the embryonic yolk sac from embryos with ectopic Norrin expression were compared to their wild type littermate controls. The goal is to identify the transcriptional response to Norrin-Frizzled 4 signaling during embryonic angiogenesis. Experiment Overall Design: Ectopic Norrin expression was achieved using a conditional over-expression strategy. Yolk sacs from 3-5 embryos were pooled for each sample and 3 replicates of both control and experimental groups were analyzed.

2009-10-10 | E-GEOD-16691 | biostudies-arrayexpress

Transcription profiling of inner ears from Errb mutant mice and wild type littermate controls

Project description:Transcriptional profiles were compared in microdissected lateral walls of the inner ears from Errb mutant mice and wild type littermate controls. The goal is to identify transcriptional targets of Errb and candidate genes for inner ear diseases. Experiment Overall Design: Errb mutant mice were generated by conditional knock-out strategy. Inner ears from 10 mice were pooled for each sample and 3 replicates of wild type and mutant samples were analyzed.

2008-06-16 | E-GEOD-8434 | 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