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Sample GSM995454 Query DataSets for GSM995454
Status Public on Oct 17, 2012
Title Xbp1 ko, biological rep1
Sample type RNA
 
Source name Xbp1 ko, fed state
Organism Mus musculus
Characteristics tissue: Liver
gender: male
stain: c57BL/6
genotype: Xbp1 ko
age: 14 weeks
Extracted molecule total RNA
Extraction protocol Trizol (Invitrogen) extraction of total RNA followed by cleanup using RNeasy MinElute Cleanup Kit (Qiagen) was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1.2 ug of total RNA.
 
Hybridization protocol Affymetrix Standard Protocol
Scan protocol AGCC GeneTitan Wash and Scan
Data processing We use the R bioconductor suite to normalize the Affymetrix data. The package we use for RMA is in the affy package and the version we currently use is 1.20.2 .
 
Submission date Aug 31, 2012
Last update date Oct 17, 2012
Contact name Ann-Hwee Lee
E-mail(s) ahlee@hsph.harvard.edu
Organization name Harvard School of public health
Street address 651 Huntington Ave, FXB/205
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL11180
Series (1)
GSE40515 Expression data from IRE1a or XBP1 deficient mouse liver

Data table header descriptions
ID_REF
VALUE RMA Signal Intensity

Data table
ID_REF VALUE
1415670_PM_at 83
1415671_PM_at 182
1415672_PM_at 331
1415673_PM_at 21
1415674_PM_a_at 55
1415675_PM_at 41
1415676_PM_a_at 370
1415677_PM_at 181
1415678_PM_at 239
1415679_PM_at 646
1415680_PM_at 42
1415681_PM_at 179
1415682_PM_at 68
1415683_PM_at 365
1415684_PM_at 82
1415685_PM_at 61
1415686_PM_at 161
1415687_PM_a_at 301
1415688_PM_at 299
1415689_PM_s_at 91

Total number of rows: 45037

Table truncated, full table size 736 Kbytes.




Supplementary file Size Download File type/resource
GSM995454_Xbp1_ko1.CEL.gz 1.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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