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Sample GSM596 Query DataSets for GSM596
Status Public on Nov 21, 2001
Title NOD_T1
Sample type RNA
Source name Thymus
Organism Mus musculus
Extracted molecule total RNA
Description RNA was extracted from a pool of three thymi taken from four week 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 17, 2001
Last update date May 27, 2005
Contact name Iain Eaves
Phone ++44 (0)1223 762105
Fax ++44 (0)1223 762102
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
GSE12 Group1

Data table header descriptions
VALUE Normalized average intensity for probe set

Data table
1 97
2 31
3 10
4 216
5 -28
6 601
7 9
8 -9
9 -10
10 49
11 19
12 6
13 54
14 167
15 859
16 86
17 -4
18 57
19 -12
20 -31

Total number of rows: 39114

Table truncated, full table size 354 Kbytes.

Supplementary data files not provided

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