GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM463215 Query DataSets for GSM463215
Status Public on May 17, 2010
Title CHM021
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 0.00068462 AA 3431.785 772.5336
SNP_A-1967418 BB 0.01609981 BB 289.0581 592.0217
SNP_A-1969580 BB 0.006494574 BB 1150.101 3903.388
SNP_A-4263484 BB 0.006224854 BB 580.5431 1715.187
SNP_A-1978185 BB 0.008878823 BB 881.4824 2869.258
SNP_A-4264431 BB 0.002455781 BB 443.9451 1417.189
SNP_A-1980898 AA 0.00293651 AA 973.2986 251.1908
SNP_A-1983139 BB 0.006604682 BB 375.4899 1777.569
SNP_A-4265735 AA 0.00886937 AA 1127.486 462.9186
SNP_A-1995832 AA 0.00569629 AA 1893.982 424.3182
SNP_A-1995893 AA 0.004025107 AA 2128.493 1147.564
SNP_A-1997689 BB 0.006174784 BB 1057.093 4177.399
SNP_A-1997709 AA 0.004956775 AA 1928.089 226.6299
SNP_A-1997896 AA 0.004640942 AA 1267.052 442.589
SNP_A-1997922 AA 0.005551083 AA 1061.961 315.5635
SNP_A-2000230 AA 0.003786091 AA 2993.204 1374.42
SNP_A-2000332 AA 0.001209122 AA 3304.513 850.7725
SNP_A-2000337 AA 0.001264105 AA 1927.113 307.2008
SNP_A-2000342 AA 0.009275965 AA 3375.358 1132.758
SNP_A-4268173 AA 0.002380853 AA 1714.007 328.1693

Total number of rows: 909622

Table truncated, full table size 44170 Kbytes.

Supplementary file Size Download File type/resource
GSM463215_071218CHM021.CEL.gz 31.7 Mb (ftp)(http) CEL
GSM463215_071218CHM021.CN5.CNCHP.txt.gz 20.4 Mb (ftp)(http) TXT
GSM463215_071218CHM021.birdseed-v2.chp.txt.gz 15.1 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap