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Sample GSM358466 Query DataSets for GSM358466
Status Public on Jan 08, 2010
Title 04-TB-021-1B
Sample type RNA
 
Source name primary colorectal adenocarcinoma
Organism Homo sapiens
Characteristics Location: Rectum; DukesStage: B; Age_Diag: 78; Gender: M; DFS_Time: 40.4; DFS_Cens: 1; AdjXRT: N; AdjCTX: N
Biomaterial provider Royal Melbourne Hospital
Extracted molecule total RNA
Extraction protocol Surgically isolated colorectal cancers were immediately frozen in liquid nitrogen. Total RNA was extracted from cancer tissue using Trizol reagent (Invitrogen).
Label biotin
Label protocol Approximately 8 ug of total RNA was processed to produce biotinylated cRNA targets.
 
Hybridization protocol standard Affymetrix procedures
Scan protocol standard Affymetrix procedures
Description Location: Rectum; DukesStage: B; Age_Diag: 78; Gender: M; DFS_Time: 40.4; DFS_Cens: 1; AdjXRT: N; AdjCTX: N
Data processing Use the simpleaffy package in R/Bioconductor to calculate MAS5.0 calls. These values were subsequently normalized using quantile normalization.
 
Submission date Jan 08, 2009
Last update date Jun 14, 2011
Contact name Oliver Sieber
Phone 61-3-9341-3155
Fax 61-3-9341-3104
URL http://www.ludwig.edu.au
Organization name Ludwig Institute for Cancer Research
Department Melbourne Tumour Biology Branch
Lab LCCI laboratory
Street address 6th floor, Centre for Medical Research, Royal Melbourne Hospital, Royal Parade
City Parkville
State/province Victoria
ZIP/Postal code 3052
Country Australia
 
Platform ID GPL570
Series (1)
GSE14333 Expression data from 290 primary colorectal cancers
Relations
Reanalyzed by GSE29971

Data table header descriptions
ID_REF
VALUE log-base-2 values of quantile normalized MAS5.0 calls

Data table
ID_REF VALUE
1007_s_at 10.10793984
1053_at 7.859759658
117_at 6.269647075
121_at 8.600565392
1255_g_at 1.502624675
1294_at 7.341675987
1316_at 5.910475587
1320_at 2.803967163
1405_i_at 5.341598378
1431_at 3.607532556
1438_at 7.998220204
1487_at 9.874464373
1494_f_at 6.477434717
1552256_a_at 8.229479368
1552257_a_at 9.533259988
1552258_at 6.036836171
1552261_at 4.68118348
1552263_at 6.073615647
1552264_a_at 7.880723524
1552266_at 5.598032331

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM358466.CEL.gz 7.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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