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Sample GSM463224 Query DataSets for GSM463224
Status Public on May 17, 2010
Title CHM032
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 0.003281226 AA 3188.753 787.804
SNP_A-1967418 BB 0.01619772 BB 339.9013 632.6445
SNP_A-1969580 BB 0.00301522 BB 1443.055 4578.627
SNP_A-4263484 BB 0.003320416 BB 497.5742 1853.319
SNP_A-1978185 AA 0.01393209 AA 1305.485 397.6003
SNP_A-4264431 BB 0.003785001 BB 457.7694 1349.049
SNP_A-1980898 BB 0.0131876 BB 290.4807 639.5967
SNP_A-1983139 AA 0.01819692 AA 2038.22 480.5441
SNP_A-4265735 BB 0.01924506 BB 498.0499 1132.512
SNP_A-1995832 BB 0.002885911 BB 509.4716 1452.997
SNP_A-1995893 BB 0.00278531 BB 459.1935 2682.594
SNP_A-1997689 BB 0.002396169 BB 979.4891 4411.058
SNP_A-1997709 AA 0.002145112 AA 1658.444 251.2781
SNP_A-1997896 AA 0.002389115 AA 1679.954 524.2243
SNP_A-1997922 BB 0.005421131 BB 406.1974 1184.994
SNP_A-2000230 AA 0.005153503 AA 2877.239 1326.701
SNP_A-2000332 AA 0.01151306 AA 2778.792 688.1851
SNP_A-2000337 AA 0.002783513 AA 1864.826 391.7987
SNP_A-2000342 AA 0.003193973 AA 3578.987 1036.866
SNP_A-4268173 AA 0.001121666 AA 1844.177 332.5853

Total number of rows: 909622

Table truncated, full table size 44137 Kbytes.

Supplementary file Size Download File type/resource
GSM463224_071218CHM032.CEL.gz 31.5 Mb (ftp)(http) CEL
GSM463224_071218CHM032.CN5.CNCHP.txt.gz 20.3 Mb (ftp)(http) TXT
GSM463224_071218CHM032.birdseed-v2.chp.txt.gz 15.1 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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