GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM463276 Query DataSets for GSM463276
Status Public on May 17, 2010
Title CHM093
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 0.003599432 AA 3834.728 811.5301
SNP_A-1967418 BB 0.01030289 BB 370.3514 756.5768
SNP_A-1969580 BB 0.001675049 BB 1170.513 4384.627
SNP_A-4263484 BB 0.003475938 BB 602.5115 1832.543
SNP_A-1978185 AA 0.006609688 AA 1668.141 518.4628
SNP_A-4264431 AA 0.00362366 AA 1794.104 278.7444
SNP_A-1980898 BB 0.01034918 BB 334.9427 850.3999
SNP_A-1983139 BB 0.00337067 BB 523.2916 1815.33
SNP_A-4265735 AA 0.004705801 AA 1431.196 537.9373
SNP_A-1995832 AA 0.00489884 AA 2271.514 648.9564
SNP_A-1995893 AA 0.00127845 AA 2260.11 1135.369
SNP_A-1997689 BB 0.009608242 BB 1159.111 4633.415
SNP_A-1997709 AA 0.01167883 AA 2134.005 391.7191
SNP_A-1997896 AA 0.005243958 AA 1288.505 411.3804
SNP_A-1997922 AA 0.009757926 AA 1391.432 265.4226
SNP_A-2000230 AA 0.003755301 AA 3062.705 1441.998
SNP_A-2000332 AA 0.006036249 AA 3301.424 1094.595
SNP_A-2000337 AA 0.01191899 AA 1702.557 484.0465
SNP_A-2000342 AA 0.004435992 AA 3302.765 947.5066
SNP_A-4268173 AA 0.00295221 AA 1685.615 251.1399

Total number of rows: 909622

Table truncated, full table size 44081 Kbytes.

Supplementary file Size Download File type/resource
GSM463276_071219CHM093.CEL.gz 31.2 Mb (ftp)(http) CEL
GSM463276_071219CHM093.CN5.CNCHP.txt.gz 20.3 Mb (ftp)(http) TXT
GSM463276_071219CHM093.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