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Sample GSM589 Query DataSets for GSM589
Status Public on Nov 21, 2001
Title NOD_S2
Sample type RNA
 
Source name Spleen
Organism Mus musculus
Extracted molecule total RNA
 
Description RNA was extracted from a pool of three spleens taken from three month old nonobese diabetic (NOD) mice kept in sterile, specific pathogen free conditions. Target cRNA was prepared and hybridized to Eos custom GeneChip arrays (GPL24) as described for standard, commercially available Affymetrix GeneChips (Mahadevappa and Warrington 1999) and raw image data was analyzed using the GeneChip Expression Analysis Software (Affymetrix). Data for each GeneChip was normalized using a proprietary method developed at Eos (Ghandour and Glynne 2000). Briefly, for each probe array in the series background subtracted average cell intensities were fitted to a gamma distribution. These normalized cell intensities were then used to calculate an average intensity (AI) for each probe set. The AI was calculated as the trimean (T) of the probes making up a given probe set (Tukey 1977). These AI values were subjected to a second round of normalization by setting the 70th and 90th percentiles equal to the same value for each array in the series.
 
Submission date Nov 16, 2001
Last update date May 27, 2005
Contact name Iain Eaves
E-mail(s) iain@gene.cimr.cam.ac.uk
Phone ++44 (0)1223 762105
Fax ++44 (0)1223 762102
URL http://www-gene.cimr.cam.ac.uk/todd/
Organization name Cambridge Institute for Medical Research
Department Medical genetics
Lab JDRF/WT Diabetes and Inflammation Laboratory
Street address Hills Road
City Cambridge
ZIP/Postal code CB2 2XY
Country United Kingdom
 
Platform ID GPL24
Series (2)
GSE11 NOD model of type 1 diabetes
GSE15 Group2

Data table header descriptions
ID_REF
VALUE Normalized average intensity for probe set

Data table
ID_REF VALUE
1 54
2 23
3 -19
4 162
5 -14
6 661
7 11
8 2
9 -16
10 45
11 4
12 -2
13 57
14 106
15 980
16 157
17 -15
18 70
19 -20
20 -39

Total number of rows: 39114

Table truncated, full table size 355 Kbytes.




Supplementary data files not provided

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