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Sample GSM1864208 Query DataSets for GSM1864208
Status Public on May 13, 2016
Title BJ_replicate_2
Sample type RNA
 
Source name Primary human BJ foreskin fibroblasts (normal cells)
Organism Homo sapiens
Characteristics cell line: BJ
cell type: foreskin fibroblast cells
Growth protocol BJ cells were cultured in monolayer conditions Dulbecco’s modified Eagle’s medium (DMEM)/M199 (4:1) (with 4.5 g/l glucose) supplemented with 10% of heat inactivated fetal calf serum (FCS).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from cells using the GENEEluteTM RNA extraction kit (Sigma)
Label biotin
Label protocol Biotinylated single strand cDNA targets were prepared, starting from 150 ng of total RNA, using the Ambion WT Expression Kit (Cat # 4411974) and the Affymetrix GeneChip® WT Terminal Labeling Kit (Cat # 900671) according to Affymetrix recommendations.
 
Hybridization protocol Following fragmentation and end-labeling, 1.9 μg of cDNAs were hybridized for 16 hours at 45 C on GeneChip® Human Gene 1.0 ST arrays (Affymetrix). The chips were washed and stained in the GeneChip® Fluidics Station 450 (Affymetrix)
Scan protocol The chips were scanned with the GeneChip® Scanner 3000 7G (Affymetrix) at a resolution of 0.7 µm.
Description Gene expression data from normal fibroblast cells
Data processing Raw data (.CEL Intensity files) were extracted from the scanned images using the Affymetrix GeneChip® Command Console (AGCC) version 4.0.
CEL files were further processed with Affymetrix Expression Console software version 1.3.1 to calculate probe set signal intensities using Robust Multi-array Average (RMA) algorithms with default settings.
 
Submission date Aug 31, 2015
Last update date May 13, 2016
Contact name Valeriya Malysheva
E-mail(s) Valeriya.MALYSHEVA@igbmc.fr
Organization name IGBMC
Street address 1 rue Laurent Fries
City Illkirch; Strasbourg
ZIP/Postal code 67404
Country France
 
Platform ID GPL6244
Series (2)
GSE72530 Reconstructing gene regulatory networks of tumorigenesis [genex]
GSE72533 Reconstructing gene regulatory networks of tumorigenesis

Data table header descriptions
ID_REF
VALUE RMA signal

Data table
ID_REF VALUE
7896738 4.291587
7896740 4.222119
7896742 7.114434
7896744 4.688624
7896746 9.967276
7896748 7.088349
7896750 5.173108
7896752 11.51692
7896756 5.615092
7896761 7.503111
7896779 7.81806
7896817 7.231874
7896859 6.736071
7896861 4.408113
7896863 5.81039
7896865 7.719599
7896878 7.902184
7896882 6.648202
7896908 8.802468
7896917 7.335846

Total number of rows: 33297

Table truncated, full table size 549 Kbytes.




Supplementary file Size Download File type/resource
GSM1864208_BJ_replicate2.CEL.gz 4.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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