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Sample GSM463278 Query DataSets for GSM463278
Status Public on May 17, 2010
Title CHM095
Sample type genomic
Source name complete hydatidiform mole
Organism Homo sapiens
Characteristics tissue: complete hydatidiform mole
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted from complete hydatidiform mole tissues using the Qiagen DNA Mini Kit. DNA quality and quantity was assessed using a Nanodrop Spectrophotometer, PicoGreen and agarose gel electrophoresis.
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 washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000 7G.
Description none
Data processing CEL files were processed by Affymetrix Genotyping Console 3.0.1. Calls were generated using birdseed-v2 algorithm. Copy number analysis was performed using "Reference Model File Creation and Analysis" mode without with regional GC correction configuration.
Submission date Oct 20, 2009
Last update date May 17, 2010
Contact name Kenshi Hayashi
Phone +81-92-642-6171
Organization name Kyushu University
Department Medical Institute of Bioregulation
Street address Maidashi 3-1-1, Higashi-ku
City Fukuoka
ZIP/Postal code 812-8582
Country Japan
Platform ID GPL6801
Series (2)
GSE18642 Definitive SNP/CNV haplotype map of Asians determined using a collection of complete hydatidiform moles (Affymetrix)
GSE18701 Definitive SNP/CNV haplotype map of Asians determined using a collection of complete hydatidiform moles

Data table header descriptions
Forced Call
Signal A
Signal B

Data table
ID_REF VALUE Confidence Forced Call Signal A Signal B
SNP_A-2131660 BB 0.009081878 BB 1048.517 3949.189
SNP_A-1967418 BB 0.002128346 BB 321.7021 890.3777
SNP_A-1969580 BB 0.02552987 BB 1643.996 4119.916
SNP_A-4263484 BB 0.003341548 BB 637.6165 2105.538
SNP_A-1978185 AA 0.002943261 AA 1903.07 488.8815
SNP_A-4264431 AA 0.006158857 AA 1768.373 417.391
SNP_A-1980898 BB 0.00691812 BB 307.975 787.5594
SNP_A-1983139 BB 0.001076201 BB 524.5131 2082.645
SNP_A-4265735 AA 0.003504388 AA 1474.076 489.9331
SNP_A-1995832 BB 0.004954342 BB 688.7335 2008.241
SNP_A-1995893 BB 0.0007994876 BB 436.7056 2445.329
SNP_A-1997689 BB 0.004835388 BB 1056.975 4519.796
SNP_A-1997709 AA 0.005479457 AA 1528.846 298.7724
SNP_A-1997896 AA 0.004216773 AA 1488.521 562.1816
SNP_A-1997922 BB 0.002857147 BB 544.4223 1379.081
SNP_A-2000230 BB 0.001943118 BB 1131.838 4122.073
SNP_A-2000332 BB 0.0008984299 BB 1233.851 3650.195
SNP_A-2000337 AA 0.01123872 AA 2278.768 428.1599
SNP_A-2000342 AA 0.005770382 AA 3548.866 1099.53
SNP_A-4268173 AA 0.0009342746 AA 1736.059 299.8429

Total number of rows: 909622

Table truncated, full table size 44131 Kbytes.

Supplementary file Size Download File type/resource
GSM463278_071219CHM095.CEL.gz 32.6 Mb (ftp)(http) CEL
GSM463278_071219CHM095.CN5.CNCHP.txt.gz 20.4 Mb (ftp)(http) TXT
GSM463278_071219CHM095.birdseed-v2.chp.txt.gz 15.2 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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