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Sample GSM298148 Query DataSets for GSM298148
Status Public on Jun 10, 2009
Title 20d SM muscle of +/Cpat, biological rep 2
Sample type RNA
 
Source name 20 day old lamb semimembranosus muscle
Organism Ovis aries
Characteristics genotype +/Cpat, age 20 days, breed 1/2 suffolk 1/2 dorset, muscle semimembranosus
Treatment protocol Lambs were euthanized, semimembranosus muscle excised and fixed in RNAlater (Ambion).
Growth protocol Lambs were housed indoors and allowed to nurse ewes fed grain based diet until collection.
Extracted molecule total RNA
Extraction protocol Tissue homogenized in 4M guanidinium thiocyanate, 25mM EDTA, 1% sodium-N-lauroyl-sarcosine. Homogenates ultracentrifuged on 5.7M CsCl cusion. RNA purified and DNase treated with Nucleospin RNA II columns (Machery-Nagel Inc.).
Label biotin
Label protocol Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 5 micrograms total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 20 micrograms of cRNA were hybridized for 16hr at 45C on GeneChip Bovine Expression Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 7G.
Description gene expression data using bovine platform
Data processing Images were interpreted with Microarray Suite version 5.0 (MAS5.0) in GCOS with no scaling or normalization. Images were also interpreted by RMA using Bioconductor package of R.
The VALUEs below represent MAS5.0 signals.
 
Submission date Jun 13, 2008
Last update date Jun 13, 2008
Contact name Christopher A Bidwell
E-mail(s) cbidwell@purdue.edu
Phone 765-494-8016
Organization name Purdue University
Department Animal Sciences
Street address 125 South Russell Street
City West Lafayette
State/province IN
ZIP/Postal code 47907-2042
Country USA
 
Platform ID GPL2112
Series (1)
GSE11780 Muscle gene expression of lambs with maternal callipyge allele

Data table header descriptions
ID_REF
VALUE MAS5 signals
ABS_CALL

Data table
ID_REF VALUE ABS_CALL
AFFX-BioB-5_at 232.4 P
AFFX-BioB-M_at 219.6 P
AFFX-BioB-3_at 190.9 P
AFFX-BioC-5_at 689.9 P
AFFX-BioC-3_at 738 P
AFFX-BioDn-5_at 1215.7 P
AFFX-BioDn-3_at 2739.8 P
AFFX-CreX-5_at 6132.6 P
AFFX-CreX-3_at 6966 P
AFFX-DapX-5_at 193.2 P
AFFX-DapX-M_at 305.7 P
AFFX-DapX-3_at 434.7 P
AFFX-LysX-5_at 21.8 P
AFFX-LysX-M_at 39.1 A
AFFX-LysX-3_at 85.4 P
AFFX-PheX-5_at 24.9 P
AFFX-PheX-M_at 29.3 P
AFFX-PheX-3_at 59.2 P
AFFX-ThrX-5_at 66.8 P
AFFX-ThrX-M_at 72.7 P

Total number of rows: 24128

Table truncated, full table size 553 Kbytes.




Supplementary file Size Download File type/resource
GSM298148.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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