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Sample GSM1868967 Query DataSets for GSM1868967
Status Public on May 13, 2016
Title BJEL_SNP_Affy_250K
Sample type genomic
 
Source name Immortalized BJEL fibroblast cells (pretransformed)
Organism Homo sapiens
Characteristics cell line: BJEL
cell type: foreskin fibroblast cells
Growth protocol BJEL 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), G-418 (400 µg/µl) and Hygromycin (400 µg/µl).
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted from cells using the QIAamp DNA Mini Kit cat. No. 51304
Label Biotin
Label protocol According to manufacturer (Affymetrix)
 
Hybridization protocol DNA was hybridized to each array according to the manufacturer's instructions at 49°C during 16hr, washed and stained on GeneChip Fluidics Station 450
Scan protocol The arrays were scanned using Affymetrix GCS3000-7G
Description Immortalized BJEL fibroblast cells (pretransformed)
Data processing For each array the .CEL file was generated using Affymetrix GeneChip Command Console version 3.2 (AGCC v4.1). Analysis of copy number and Loss of heterozygosity were performed using Genotyping Console 4.2.0.26. BJEL and BJELM samples were compared in a pairwise manner with BJ sample.
 
Submission date Sep 04, 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 GPL3718
Series (2)
GSE72531 Reconstructing gene regulatory networks of tumorigenesis [SNP]
GSE72533 Reconstructing gene regulatory networks of tumorigenesis

Data table header descriptions
ID_REF
VALUE SNP call: AA, AB, BB and NoCall

Data table
ID_REF VALUE
AFFX-2315058 AA
AFFX-2315072 AA
AFFX-2315073 AA
AFFX-2315076 BB
AFFX-2315080 BB
AFFX-2315095 AA
AFFX-2315053 BB
SNP_A-1780520 BB
SNP_A-1780654 AA
SNP_A-1780848 BB
SNP_A-1781302 BB
SNP_A-4192564 BB
SNP_A-1781633 AA
SNP_A-1781829 AA
SNP_A-1781832 AA
SNP_A-1781982 AA
SNP_A-1782949 BB
SNP_A-1784070 BB
SNP_A-1784836 AA
SNP_A-1784941 AA

Total number of rows: 239314

Table truncated, full table size 3972 Kbytes.




Supplementary file Size Download File type/resource
GSM1868967_BJEL_Mapping250K_NSP_.CEL.gz 24.5 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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