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Sample GSM88876 Query DataSets for GSM88876
Status Public on Dec 23, 2005
Title Scd1-/- on very low fat diet (TD03045 from Harlan Teklad) replicate 5
Sample type RNA
 
Source name liver
Organism Mus musculus
Characteristics Mus musculus (backcrossed to C57BL/6J mice for 5+ generations)
Scd1 knock out mouse, Harlan Teklad TD03045 diet, liver
Extracted molecule total RNA
Extraction protocol For each individual sample, about 10-50mg flash frozen liver tissue piece was transfeered to -80oC cold RNALater-ICE (Ambion) and placed at -20oC overnight. Tissue was processed according to manufacture's protocol. Total RNA was extracted from the tissue lysate using an RNeasy kit (Qiagen).
Label biotin
Label protocol Approximately 15 ?g of total RNA was processed to produce biotinylated cRNA targets.
 
Hybridization protocol standard Affymetrix procedures
Scan protocol standard Affymetrix procedures
Description Scd1 knock out mice, liver, total RNA processed to biotin-labeled cRNA
Data processing Affymetrix Microarray Suite version 5.0 was used to generate .CEL files. The .CEL files was processed by Robust Multi-Array Analysis (RMA) in R/Bioconductor to generate expression values represented by RMA
 
Submission date Dec 21, 2005
Last update date Aug 28, 2018
Contact name Alan D Attie
E-mail(s) attie@biochem.wisc.edu
Phone 608-262-4705
Fax 608-263-9609
URL http://www.biochem.wisc.edu/attie/
Organization name University of Wisconsin-Madison
Department Biochemistry
Lab Attie
Street address 433 Babcock Drive
City Madison
State/province WI
ZIP/Postal code 53706
Country USA
 
Platform ID GPL1261
Series (1)
GSE3889 Scd1 Knockout Mice on very low fat diet
Relations
Reanalyzed by GSE24948
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE Expression values represented by RMA (R/Bioconductor; http://www.bioconductor.org/)

Data table
ID_REF VALUE
1415670_at 379.27
1415671_at 1037.77
1415672_at 984.53
1415673_at 270.63
1415674_a_at 347.11
1415675_at 296.85
1415676_a_at 1864.72
1415677_at 648.31
1415678_at 821.20
1415679_at 1071.16
1415680_at 217.75
1415681_at 664.41
1415682_at 99.95
1415683_at 1279.27
1415684_at 183.17
1415685_at 199.74
1415686_at 304.77
1415687_a_at 2815.26
1415688_at 566.37
1415689_s_at 73.78

Total number of rows: 45101

Table truncated, full table size 774 Kbytes.




Supplementary file Size Download File type/resource
GSM88876.CEL.gz 3.4 Mb (ftp)(http) CEL

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