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Sample GSM463213 Query DataSets for GSM463213
Status Public on May 17, 2010
Title CHM019
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 AA 0.002472831 AA 3530.453 852.5291
SNP_A-1967418 BB 0.01879686 BB 283.4121 1110.971
SNP_A-1969580 BB 0.01770505 BB 1995.64 5613.241
SNP_A-4263484 AA 0.001366887 AA 2751.555 462.7056
SNP_A-1978185 AA 0.002715529 AA 1912.71 428.9684
SNP_A-4264431 AA 0.006009618 AA 2179.488 351.8983
SNP_A-1980898 BB 0.006075661 BB 244.0817 1069.486
SNP_A-1983139 BB 0.001952798 BB 478.8321 2112.126
SNP_A-4265735 BB 0.003016496 BB 413.1853 1371.47
SNP_A-1995832 AA 0.001891586 AA 2185.116 541.166
SNP_A-1995893 AA 0.009759713 AA 2677.013 1039.281
SNP_A-1997689 BB 0.003464429 BB 1003.863 4294.885
SNP_A-1997709 AA 0.007462152 AA 2454.759 365.5025
SNP_A-1997896 AA 0.004653059 AA 1740.561 393.6596
SNP_A-1997922 AA 0.001794355 AA 1194.768 256.5375
SNP_A-2000230 AA 0.004481612 AA 3122.299 1127.225
SNP_A-2000332 AA 0.002660305 AA 3141.763 801.9068
SNP_A-2000337 AA 0.001647983 AA 2033.146 296.245
SNP_A-2000342 AA 0.004112321 AA 3474.926 1037.976
SNP_A-4268173 AA 0.004170425 AA 1866.563 379.604

Total number of rows: 909622

Table truncated, full table size 44076 Kbytes.

Supplementary file Size Download File type/resource
GSM463213_071218CHM019.CEL.gz 32.0 Mb (ftp)(http) CEL
GSM463213_071218CHM019.CN5.CNCHP.txt.gz 20.3 Mb (ftp)(http) TXT
GSM463213_071218CHM019.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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