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Series GSE6509 Query DataSets for GSE6509
Status Public on Mar 22, 2007
Title Gene Profile of RU486 effect on LPS induced gene expression in CNS.
Organism Mus musculus
Experiment type Expression profiling by array
Summary The study was designed in order to identify genes differentially expressed when glucocorticoid signaling is blocked by a glucocorticoid-receptor antagonist (RU486 – mifepristone) in the context of brain inflammation induced by bacterial lipopolysaccharide (LPS). LPS is only able to cause murine brain damage in our experimental conditions upon RU486 pre-treatment. Hence, the study may reveal potential candidate genes to mediate neuroprotection or neurotoxicity. Due to the factorial design of the experiment, RU486 main-effect could be dissociated from the effects resultant of RU486/inflammation interaction. In addition, brain dissection was conducted to verify the effects in the brain side ipsilateral or contralateral to the site of intracerebral LPS infusion.
Keywords: Brain, CNS, LPS, Glucocorticoid, RU486, Mifrespitone, Innate immune response, Inflammation, Affymetrix, Gene profile, Neuroprotection, Neurodegeneration, Factorial design.
 
Overall design C57Bl/6 mice received an i.p. injection of vehicle (DMSO - 50 microliters) or RU486 (50 mg/kg) and were submitted to surgery 4 h later. The mice receiving intraparenchymal injections were anesthetized and the right caudate putamen was reached, using a small cannula at the coordinates 0.0 mm anteroposterior, -2.0 mm lateral, and -3.0 mm dorsoventral according to a mouse brain atlas. The animals received an infusion of sterile pyrogen-free saline (1 microliter) or LPS (from Eschericia coli; serotype O55:B5; Sigma L2880 - 2.5 micrograms) over 2 min by means of a microinjection 18 pump. Animals were killed 12 h after the intracerebral infusion. The mice were anesthetized under isofluorane and blood was drawn via cardiac puncture before head decapitation. Brains were removed rapidly from the skulls and placed in cold phosphate buffered saline (PBS) solution. A brain region limited at plane anteroposterior +1.5 to -1.5 and dorsoventral -4.0 was dissected, separated in ipsilateral side and quickly immersed in liquid nitrogen. The tissue was stored at -80 oC until RNA extraction was performed. A total of 37 chips (MOE430A – Affymetrix, Santa Clara, CA) were used for oligonucleotide array analysis [one chip per biological sample; 8 groups (contralateral dmso/saline, dmso/LPS, RU486/saline, RU486/LPS and ipsilateral dmso/saline, dmso/LPS, RU486/saline, RU486/LPS) with 4 – 6 biological replicates each]. Expression values from the CEL files generated from scanning were obtained using RMA algorithm, available at http://www.bioconductor.org. The expression values were also inspected with GeneSpring software (Silicon Genetics). Statistical analysis was performed considering a factorial linear model according to the methods implemented in Limma package (R project packages are available at http://www.cran.r-project.org).
 
Contributor(s) Glezer I, Chernomoretz A, Rivest S
Citation(s) 17375196
Submission date Dec 12, 2006
Last update date Jan 08, 2019
Contact name Ariel Chernomoretz
E-mail(s) [email protected]
Organization name University of Buenos Aires
Department Physics Department
Street address Ciudad Universitaria Pab I
City Buenos Aires
ZIP/Postal code 1428
Country Argentina
 
Platforms (1)
GPL339 [MOE430A] Affymetrix Mouse Expression 430A Array
Samples (37)
GSM149747 mouse brain contralateral control, biological rep1
GSM149748 mouse brain contralateral control, biological rep2
GSM149749 mouse brain contralateral control, biological rep3
Relations
BioProject PRJNA98685

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE6509_RAW.tar 133.3 Mb (http)(custom) TAR (of CEL)

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