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

SAGE analysis of mouse brain regions

ABSTRACT: SAGE analysis of various brain regions from 8- to 12-week-old male C57BL/6 mice. Keywords: other

ORGANISM(S): Mus musculus

SUBMITTER: Michel de Chaldée

PROVIDER: E-GEOD-348 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Quantitative assessment of transcriptome differences between brain territories.

de Chaldée Michel M Gaillard Marie-Claude MC Bizat Nicolas N Buhler Jean-Marie JM Manzoni Olivier O Bockaert Joël J Hantraye Philippe P Brouillet Emmanuel E Elalouf Jean-Marc JM

Genome research 20030701 7

Transcriptome analysis of mammalian brain structures is a potentially powerful approach in addressing the diversity of cerebral functions. Here, we used a microassay for serial analysis of gene expression (SAGE) to generate quantitative mRNA expression profiles of normal adult mouse striatum, nucleus accumbens, and somatosensory cortex. Comparison of these profiles revealed 135 transcripts heterogeneously distributed in the brain. Among them, a majority (78), although matching a registered seque ...[more]

PMID: 12840043

Similar Datasets

eye-SAGE

Project description:Human retinal and RPE SAGE libraries. Profile of the genes expressed in the human peripheral retina, macula, and retinal pigment epithelium determined through serial analysis of gene expression (SAGE). Keywords: other

2001-10-03 | E-GEOD-10 | biostudies-arrayexpress

SAGE analysis of wild-type mouse brain regions

Project description:SAGE libraries generated from various brain regions of 8- to 12-week-old male C57BL/6 mice. Keywords: Micro-dissection, Brain regions, SAGE Sau3A I was used as the anchoring enzyme and Bsmf I as the tagging enzyme. Data are provided after linker removal.

2008-02-05 | E-GEOD-7594 | biostudies-arrayexpress

SAGE analysis of Type 2 Gaucher brain

Project description:This library was constructed from mRNA derived from an eight month old female with type 2 Gaucher disease according to the SAGE protocol of V. E. Velculescu et al. (1995), in the laboratory of R. L. Proia (NIDDK, NIH). This GEO Series was created by the GEO staff as part of a cleanup effort to ensure that all GEO Samples are included within a Series entry.

2010-12-01 | E-GEOD-25756 | biostudies-arrayexpress

Pituitary Tumors cDNA SAGE Libraries

Project description:Despite a considerable literature concerning the molecular pathogenesis of pituitary tumors, the mechanisms of pituitary tumors development and progression remain unknown. Four SAGE cDNA libraries were constructed using a pool of mRNA obtained from five GH-, two ACTH-secreting, and four non secreting pituitary tumors (NS), and three normal pituitaries from patients who had accidental death, using I-SAGE kit (Invitrogen). The aim of this study was to evaluate the differential gene expression profile by SAGE genes in different subtypes of pituitary tumors to contribute for understanding of pituitary tumorigenesis. Comparative analysis of gene expression profiles in subtypes of pituitary tumores.

2014-04-10 | E-GEOD-37153 | biostudies-arrayexpress

Comprehensive gene expression analysis of Bruce-4 embryonic stem cells by SAGE

Project description:Mouse embryonic stem cells lines derived from different mouse strains show considerable variation concerning their culture conditions, gene targeting efficiency and germ line transmission capacity. To gain insight into the basis for this phenomenon, we generated a SAGE library of the C57BL/6 derived ES cell line Bruce-4 and compared their gene expression to 129 strain-derived cells, which in general show the best performance in gene targeting experiments. Gene Ontology (GO) analyses for functional groups of genes demonstrated considerably higher expression of clusters indicating cellular differentiation as well as cell-cell and cell-matrix adhesion in R1 than in Bruce-4 cells. At the single gene level, almost 90% of the most strongly expressed transcripts in each library were significantly differential. Regarding transcripts that have been linked to stem cell state, seven of the 20 selected genes were expressed in both cell lines, eleven showed stronger expression in Bruce-4 ES cells and only one in R1 cells. These results suggest that expression of “stemness” genes cannot be used as a sole criterion for efficiency of ES cells in gene targeting experiments. Keywords: Embryonic stem cells, SAGE, gene expression profile We generated a SAGE library of the C57BL/6-derived ES cell line Bruce-4 and compared their gene expression to an already available SAGE library of 129-derived R1 ES cells generated by Anisimov et al (GSM72878).

2007-09-21 | E-GEOD-9078 | biostudies-arrayexpress

Grass shrimp SAGE libraries

Project description:Adult male grass shrimp were exposed for 96 hours to LC50 concentrations of either Fipronil, Endosulfan, or Cadmium, as well as a Carrier Control exposure. RNA was extracted from whole-body homogenates using the RNABee kit. Tags were clustered to identify tags diagnostic of the different exposures. Keywords: SAGE, Grass shrimp, ecotoxicogenomics 3 randomly selected shrimp were pooled for each library. Libraries were constructed using the I-SAGE long kit from Invitrogen.

2006-05-18 | E-GEOD-4853 | biostudies-arrayexpress

Gene Expression Profiles with Common Translocations in Acute Myeloid Leukemia (AML) using SAGE

Project description:SAGE was used to profile gene expression in leukemic myeloid progenitor cells of AML patients with t(8;21), t(15;17), t(9;11) and inv(16). Keywords: SAGE analysis of gene expression in leukemic myeloid progenitor cells isolated from bone marrow Bone marrow cells from 4 patients with de novo t(9;11), 3 with treatment-related t(9;11), and 5 each with inv(16), t(15;17), t(8;21) were used for the study. Each sample contained at least 75% affected cells with no other chromosome abnormalities at cytogenetic level. Mononuclear cells were purified from bone marrow cells for each sample, and CD15+ myeloid progenitor cells were isolated from these mononuclear cells. Poly A+ RNA were isolated from CD15+ myeloid progenitor cells of each sample for SAGE tag collection.

2005-11-30 | E-GEOD-3255 | biostudies-arrayexpress

Evaluation of the chicken transcriptome by SAGE of B cell and the DT40 cell line

Project description:These libraries represent total RNA from bursal tissue of 20 day old CB-inbred chicks and the ALV induced bursal cell line DT40 Cre1 cells. Keywords = chicken transcriptome SAGE Bursal cell DT40

2004-10-06 | E-GEOD-1817 | biostudies-arrayexpress

SAGE of cotton fibers and ovules.

Project description:Transcriptomes fiber and ovules were compared by applying serial analysis of gene expression (SAGE). Keywords: Tissue Comparison We constructed three SAGE libraries and sequenced 57321, 64188, and 69104 tags from fiber, Xu-142 ovule (ovule) and fl mutant ovules (fl) respectively of Upland Cotton, Gossypium hirsutum L. cv. Xu-142.

2007-02-17 | E-GEOD-6103 | biostudies-arrayexpress

SAGE profile of rat hippocampus mRNA from Wistar rats

Project description:SAGE profile of rat hippocampus mRNA from Wistar rats This GEO Series was created by the GEO staff as part of a cleanup effort to ensure that all GEO Samples are included within a Series entry.

2010-12-01 | E-GEOD-25750 | 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