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Sample GSM830480 Query DataSets for GSM830480
Status Public on Feb 01, 2012
Title PD_3
Sample type RNA
 
Source name PD rat liver
Organism Rattus norvegicus
Characteristics tissue: liver
diet: standard chow
Sex: male
Growth protocol The animals were sacrificed and liver tissue was snap frozen in liquid nitrogen for further analyses of gene expression.
Extracted molecule total RNA
Extraction protocol We extracted total RNA from the liver of 4-month-old males of both strains using phenol-chloroform and purified with the RNeasy Mini kit (Qiagen) in accordance with the manufacturer’s protocol. The quality of the total RNA was verified by the Agilent 2100 Bioanalyzer system.
Label biotin
Label protocol Single-stranded cDNA was generated from the amplified cRNA with the WT cDNA Synthesis Kit (Affymetrix) and then fragmented and labeled with the WT Terminal Labeling Kit (Affymetrix).
 
Hybridization protocol Samples were hybridized with GeneChip Human Exon 1.0 ST Arrays (Affymetrix) and scanned at the UCLA Microarray Core Facility.
Scan protocol Array scanning was performed according to the manufacturer's instruction (Affymetrix)
Description RMA expression value derived from Expression Console software; core-gene analysis
Data processing Transcriptomic data: after evaluation of the hybridization, the quality control and the data normalization by robust multi-array analysis (RMA), the gene expression was compared between the PD.SHR4a and PD strains utilizing PARTEK Genomics Suite (Partek, Inc.).
 
Submission date Nov 09, 2011
Last update date May 18, 2016
Contact name Ondrej Seda
Organization name Charles University in Prague
Department First Faculty of Medicine
Street address Albertov 4
City Prague
ZIP/Postal code 128 00
Country Czech Republic
 
Platform ID GPL6543
Series (1)
GSE33597 CD36-DEFICIENT CONGENIC STRAINS SHOW IMPROVED GLUCOSE TOLERANCE AND DISTINCT SHIFTS IN METABOLIC AND TRANSCRIPTOMIC PROFILES

Data table header descriptions
ID_REF
VALUE Quantification

Data table
ID_REF VALUE
7176187 4.65161
7225339 3.54208
7143418 1.98965
7258105 11.9054
7102456 3.28926
7299062 9.33414
7110645 3.86902
7258100 7.26365
7102451 8.64885
7028722 1.20548
7036914 5.34097
7315441 8.97548
7225328 1.61571
7299056 7.30293
7053295 7.93296
7102447 3.58777
7102446 2.28413
7127022 3.12986
7249899 7.17974
7053289 2.31727

Total number of rows: 8797

Table truncated, full table size 136 Kbytes.




Supplementary file Size Download File type/resource
GSM830480.CEL.gz 20.8 Mb (ftp)(http) CEL
GSM830480.chp.gz 68.5 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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