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Sample GSM257440 Query DataSets for GSM257440
Status Public on Dec 22, 2008
Title UC colon repl 2
Sample type RNA
 
Source name human colon
Organism Homo sapiens
Characteristics UC replicate sample
batch 4
Extracted molecule total RNA
Extraction protocol RNeasy Plus Mini kit (QIAGEN, Hilden, Germany)
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 100 ng total RNA amplified with TargetAmp 1-round Aminoallyl-aRNA Amplication Kit 101 (Epicentre, WI) (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on the human HG-U133 Plus 2.0 GeneChip array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix Genechip Scanner 3000.
Description gene expression data from human colon
Data processing The data were analyzed with GeneSpring version 7.3 using RMA normalization with a custom CDF file(Hs133P_Hs_REFSEQ_8) , then normalized to the internal control for each batch and the mean of the healthy control reference samples.
 
Submission date Jan 16, 2008
Last update date Dec 22, 2008
Contact name Lee Denson
E-mail(s) lee.denson@cchmc.org
Organization name CCHMC
Street address 3333 Burnet Avenue
City Cincinnati
State/province OH
ZIP/Postal code 45229
Country USA
 
Platform ID GPL5760
Series (1)
GSE10191 Human colon expression in healthy controls and UC

Data table header descriptions
ID_REF
VALUE data was RMA normalized, then normalized to the internal control sample for each batch and the mean of the healthy control reference samples

Data table
ID_REF VALUE
NM_000014_at 2.2165918
NM_000015_at 0.33909556
NM_000016_at 0.49513954
NM_000017_at 0.12009181
NM_000018_at 0.4596611
NM_000019_at 0.2807312
NM_000020_at 0.6787545
NM_000021_at 0.73142594
NM_000022_at 1.9226027
NM_000023_at 1.1220407
NM_000024_at 1.3513325
NM_000025_at 0.7570457
NM_000026_at 1.0873019
NM_000027_at 1.457683
NM_000028_at 0.51415575
NM_000029_at 11.563094
NM_000030_at 0.65247375
NM_000031_at 0.57564837
NM_000032_at 0.86330277
NM_000033_at 0.7378675

Total number of rows: 26121

Table truncated, full table size 598 Kbytes.




Supplementary file Size Download File type/resource
GSM257440.CEL.gz 5.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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