GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM463254 Query DataSets for GSM463254
Status Public on May 17, 2010
Title CHM066
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 0.003515751 AA 3859.79 846.5043
SNP_A-1967418 BB 0.008673129 BB 247.4299 975.7117
SNP_A-1969580 BB 0.008373677 BB 1700.476 5556.451
SNP_A-4263484 AA 0.00364705 AA 2412.223 396.3478
SNP_A-1978185 AA 0.002548102 AA 1860.025 389.4757
SNP_A-4264431 BB 0.003901558 BB 404.5518 1454.638
SNP_A-1980898 BB 0.004799049 BB 264.6679 1041.76
SNP_A-1983139 AA 0.002120793 AA 2490.658 620.5826
SNP_A-4265735 BB 0.002621041 BB 520.9446 1513.364
SNP_A-1995832 BB 0.005091831 BB 572.2078 2053.903
SNP_A-1995893 BB 0.007164168 BB 480.372 2884.663
SNP_A-1997689 BB 0.001906391 BB 777.5612 4217.767
SNP_A-1997709 AA 0.006192891 AA 1744.319 333.7577
SNP_A-1997896 AA 0.002036892 AA 1405.263 458.2563
SNP_A-1997922 BB 0.0006843299 BB 519.6276 1277.947
SNP_A-2000230 AA 0.004214455 AA 3319.978 1150.167
SNP_A-2000332 AA 0.002877934 AA 3144.243 791.9044
SNP_A-2000337 AA 0.002037562 AA 1938.167 378.4221
SNP_A-2000342 AA 0.002845129 AA 3487.783 987.8381
SNP_A-4268173 AA 0.01153458 AA 1656.663 401.8385

Total number of rows: 909622

Table truncated, full table size 44122 Kbytes.

Supplementary file Size Download File type/resource
GSM463254_071217CHM066.CEL.gz 32.0 Mb (ftp)(http) CEL
GSM463254_071217CHM066.CN5.CNCHP.txt.gz 20.4 Mb (ftp)(http) TXT
GSM463254_071217CHM066.birdseed-v2.chp.txt.gz 15.2 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