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Sample GSM1077791 Query DataSets for GSM1077791
Status Public on Mar 14, 2014
Title Tumor sample from L2089 patient
Sample type RNA
 
Source name Primary colon adenocarcinoma cells
Organism Homo sapiens
Characteristics sample type: Tumor
individual id: L2089
Stage: IIA
location: Left
gender: Male
age: 83
Extracted molecule total RNA
Extraction protocol RNA was extracted from tissue samples using a miRCURY™ RNA Isolation Kit (Exiqon) according to manufacturer’s protocol, quantified by NanoDrop® ND-1000 Spectrophotometer (Nanodrop technologies, Wilmington, DE) and stored at -80°C. The quality of these RNA samples was further checked using RNA 600 Nano chip (Agilent Bioanalyzer) and was confirmed by gel electrophoresis.
Label biotin
Label protocol RNA was labeled with the 3'-IVT Labeling Kit (Affymetrix, Santa Clara, USA) following the manufacturer's protocols.
 
Hybridization protocol RNA hybridization was performed through the Affymetrix Human Genome U219 microarrays, using the 96-array plate format on the GeneTitan system and following the manufacturer's recommendations (Affymetrix, Santa Clara, USA). A blocked experimental design was implemented to avoid biases.
Scan protocol Human Genome U219 array plates were scanned according to manufacturer's recommendations (Affymetrix, Santa Clara, USA).
Data processing The Robust Multi-array Average (RMA) algorithm was used for data normalization through R and Bioconductor.
 
Submission date Feb 05, 2013
Last update date Aug 31, 2023
Contact name Victor Moreno
E-mail(s) v.moreno@iconcologia.net
Organization name Catalan Institute of Oncology
Department Oncology Data Analytics Program
Street address Granvia 199
City L'Hospitalet de Llobregat
State/province Barcelona
ZIP/Postal code 08908
Country Spain
 
Platform ID GPL13667
Series (2)
GSE44076 Gene expression data from healthy, adjacent normal and tumor colon cells
GSE166427 Healthy, adjacent normal and tumor colon cells

Data table header descriptions
ID_REF
VALUE log2 RMA signal

Data table
ID_REF VALUE
11715100_at 3.7168
11715101_s_at 4.0816
11715102_x_at 3.6406
11715103_x_at 4.0296
11715104_s_at 2.7347
11715105_at 2.2382
11715106_x_at 2.6178
11715107_s_at 2.1197
11715108_x_at 2.32
11715109_at 2.3439
11715110_at 2.5087
11715111_s_at 3.7922
11715112_at 1.9759
11715113_x_at 6.2231
11715114_x_at 5.9256
11715115_s_at 1.914
11715116_s_at 2.8025
11715117_x_at 1.9486
11715118_s_at 3.5071
11715119_s_at 7.9161

Total number of rows: 49386

Table truncated, full table size 986 Kbytes.




Supplementary file Size Download File type/resource
GSM1077791_CLX_RNA_L2089_T.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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