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Series GSE9297 Query DataSets for GSE9297
Status Public on Nov 01, 2008
Title Genomic profile of IL10-/- knocked out colitis model
Organism Mus musculus
Experiment type Expression profiling by array
Summary Objetives: study and characterization of the IL10-/- knocked out colitis model in mice at genomic level and the study of the influence of bacteria in the development of the disease.
Keywords: Differentially expressed genes analysis
 
Overall design We used three groups of animasl: 1)IL10-/- mice grown under conventional condition, 2)IL10-/- mice grown under specific pathogen free (SPF) conditions, 3) Wild type mice grown under conventional conditions (CONTROL group). For each group, we recovered samples at 7, 9 and 12 weeks after birth According to colon length and colonic damage, three replicates were selected for each time point and each group (27 samples), for genomic analysis.
RNA was extracted from homogenized full-thickness colonic tissues in Trizol® reagent (Invitrogen) and purified with RNeasy affinity columns (Qiagen), according to manufacturer´s protocol. The microarray analysis was performed by Progenika Biopharma (Bilbao, Spain) on GeneChip® Rat Genome 230 2.0 Array (Affymetrix). All sample labeling (biotin), hybridization, staining and scanning procedures were carried out using Affimetrix, standard protocols (www.affymetrix.com). Normalization was carried out using Bioconductor sofware (affyPLM package).
 
Contributor(s) Montero T, Suárez A, Llor X, Gassull MA, Gil A
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Submission date Oct 11, 2007
Last update date Feb 11, 2019
Contact name Antonio Suarez
E-mail(s) asuarez@ugr.es
Phone +34 958242335
Organization name University of Granada
Department Biochemistry and Molecular Biology
Street address Pharmacy Faculty, Campus Cartuja s/n
City Granada
State/province Granada
ZIP/Postal code 18071
Country Spain
 
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (27)
GSM236926 7CC, replicate 1
GSM236927 7CC, replicate 2
GSM236928 7CC, replicate 3
Relations
BioProject PRJNA102941

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
GSE9297_RAW.tar 92.2 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table
Raw data provided as supplementary file

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