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Sample GSM1275087 Query DataSets for GSM1275087
Status Public on Dec 01, 2013
Title 08SE229
Sample type RNA
 
Source name colorectal cell fraction
Organism Homo sapiens
Characteristics disease state: metastatic colorectal cancer (mCRC)
response to chemotherapy: NO
Treatment protocol n/a
Growth protocol n/a
Extracted molecule total RNA
Extraction protocol All colorectal tissue samples were maintained at -80ºC until RNA extraction and grinded under liquid nitrogen. Homogenization was achieved using QIAshredder homogenizers and total RNA was extracted using RNeasy Mini kit (both kits from Qiagen Inc; Valencia, CA, USA).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45ºC on Human Genome U133 Plus 2.0 array. GeneChips were washed and stained following manufacturer's instructions.
Scan protocol GeneChips were scanned using the GC3000 laser confocal scanner (Affymetrix)
Data processing The microarray image data were analyzed using GeneChip Operating Software (GCOS 1.4 Affymetrix). Partek Genomics Suite v7.3.1 (Partek Inc; St Louis, MO, USA) was used for statistical analysis. Affymetrix default analysis settings were used and normalization was performed using the RMA (Robust Multichip Average) method.
 
Submission date Nov 26, 2013
Last update date Dec 01, 2013
Contact name Purificacion Estevez-Garcia
E-mail(s) puriestevez@gmail.com
Organization name Institute of Biomedicine
Department Molecular Oncology
Lab 215
Street address Manuel Siurot avenue
City Seville
State/province Seville
ZIP/Postal code 41013
Country Spain
 
Platform ID GPL570
Series (2)
GSE52735 Gene signature predictive of response to chemotherapy in mCRC [array]
GSE52847 Gene signature predictive of response to chemotherapy in mCRC

Data table header descriptions
ID_REF
VALUE RMA signal

Data table
ID_REF VALUE
1007_s_at 9.860969543
1053_at 7.981210232
117_at 5.951930046
121_at 7.129240036
1255_g_at 3.187659979
1294_at 6.974430084
1316_at 4.399059772
1320_at 4.298940182
1405_i_at 7.899600029
1431_at 2.934520006
1438_at 7.665679932
1487_at 8.587610245
1494_f_at 5.095479965
1552256_a_at 8.306030273
1552257_a_at 9.011799812
1552258_at 4.001709938
1552261_at 3.574899912
1552263_at 6.698130131
1552264_a_at 7.976739883
1552266_at 2.891910076

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM1275087_08SE229HGU133Plus2.0_230708.CEL.gz 4.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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