NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM995463 Query DataSets for GSM995463
Status Public on Oct 17, 2012
Title Xbp1 ko, IRE1 siRNA, biological rep2
Sample type RNA
 
Source name Xbp1 ko, IRE1 siRNA injected, 8 days
Organism Mus musculus
Characteristics tissue: Liver
gender: male
stain: c57BL/6
genotype: Xbp1 ko
age: 9 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 64
1415671_PM_at 212
1415672_PM_at 262
1415673_PM_at 15
1415674_PM_a_at 56
1415675_PM_at 41
1415676_PM_a_at 385
1415677_PM_at 292
1415678_PM_at 261
1415679_PM_at 538
1415680_PM_at 45
1415681_PM_at 246
1415682_PM_at 47
1415683_PM_at 368
1415684_PM_at 70
1415685_PM_at 75
1415686_PM_at 168
1415687_PM_a_at 296
1415688_PM_at 210
1415689_PM_s_at 61

Total number of rows: 45037

Table truncated, full table size 737 Kbytes.




Supplementary file Size Download File type/resource
GSM995463_Xbp1_ko_siLuc2.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap