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Sample GSM381297 Query DataSets for GSM381297
Status Public on Mar 24, 2009
Title D08-62 Hodgkin cell line L1236 SNP 6.0 array
Sample type genomic
 
Source name Hodgkin cell line L1236
Organism Homo sapiens
Characteristics cell line: Hodgkin lymphoma L1236
Treatment protocol None
Growth protocol Cell lines were grown according to standard conditions.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using the Gentra Puregene DNA Isolation Kit (Qiagen, Hilden, Germany).
Label Biotin
Label protocol As per manufacturer (Affymetrix)
 
Hybridization protocol DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
Scan protocol The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
Description hybridized to 6.0 array
Data processing Cel files were processed using the Genotyping Console software version 3.0, algorithm-name: birdseed-v2, version 2.4

CN5 data provided as a supplementary file
 
Submission date Mar 17, 2009
Last update date Mar 23, 2009
Contact name Inga Vater
E-mail(s) ivater@medgen.uni-kiel.de
Phone 00494315973549
Fax 00494315971880
Organization name Univeesity hospital Schleswig-Holstein
Department Institute of Human Genetics
Street address Arnold-Heller-Strasse 3, Haus 10
City Kiel
ZIP/Postal code 24105
Country Germany
 
Platform ID GPL6801
Series (1)
GSE15264 TNFAIP3 (A20) is a tumor suppressor gene in Hodgkin lymphoma and primary mediastinal B cell lymphoma

Data table header descriptions
ID_REF PROBE SET NAME
VALUE CALL
CONFIDENCE
FORCED CALL
SIGNAL A
SIGNAL B

Data table
ID_REF VALUE CONFIDENCE FORCED CALL SIGNAL A SIGNAL B
SNP_A-2131660 BB 0.002363 BB 1076.207642 4372.292480
SNP_A-1967418 AA 0.058404 AA 951.995544 331.224487
SNP_A-1969580 BB 0.030084 BB 1362.832031 3642.495605
SNP_A-4263484 BB 0.004611 BB 633.771545 1850.786011
SNP_A-1978185 AA 0.002995 AA 911.287598 261.943787
SNP_A-4264431 AB 0.010747 AB 1568.130859 879.933167
SNP_A-1980898 BB 0.003184 BB 253.100433 962.272156
SNP_A-1983139 AA 0.004250 AA 2981.809570 824.364014
SNP_A-4265735 AA 0.002897 AA 2000.251709 648.553040
SNP_A-1995832 AB 0.027633 AB 1280.541260 1554.429443
SNP_A-1995893 AB 0.016092 AB 1269.015991 2437.171387
SNP_A-1997689 BB 0.002902 BB 917.986450 3335.820801
SNP_A-1997709 AA 0.020923 AA 1418.364014 431.723480
SNP_A-1997896 AB 0.005232 AB 915.330688 1592.393311
SNP_A-1997922 AA 0.007203 AA 1079.495850 446.582336
SNP_A-2000230 AA 0.001718 AA 2509.010986 1110.537842
SNP_A-2000332 AA 0.001033 AA 3762.137939 809.685913
SNP_A-2000337 AA 0.001251 AA 1443.666138 304.903534
SNP_A-2000342 AA 0.005872 AA 3225.094971 805.423645
SNP_A-4268173 AB 0.006160 AB 895.670715 618.171082

Total number of rows: 909622

Table truncated, full table size 46133 Kbytes.




Supplementary file Size Download File type/resource
GSM381297.CEL.gz 26.7 Mb (ftp)(http) CEL
GSM381297_CN.CHP.gz 34.8 Mb (ftp)(http) CHP
GSM381297_birdseed-v2.chp.gz 13.1 Mb (ftp)(http) CHP
Processed data provided as supplementary file
Processed data included within Sample table

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