GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM463236 Query DataSets for GSM463236
Status Public on May 17, 2010
Title CHM047
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 0.0108668 AA 3170.388 912.0781
SNP_A-1967418 BB 0.002318107 BB 273.9259 780.0131
SNP_A-1969580 BB 0.003789162 BB 1492.19 4629.158
SNP_A-4263484 AA 0.002033137 AA 2474.463 430.1221
SNP_A-1978185 AA 0.005729185 AA 1938.019 365.9252
SNP_A-4264431 AA 0.004267884 AA 2086.67 380.6297
SNP_A-1980898 BB 0.009677532 BB 332.5331 865.7499
SNP_A-1983139 AA 0.01499121 AA 3105.81 872.4641
SNP_A-4265735 BB 0.001847565 BB 507.951 1515.491
SNP_A-1995832 AA 0.005841502 AA 2596.636 525.2236
SNP_A-1995893 AA 0.01256331 AA 2820.914 1150.764
SNP_A-1997689 BB 0.006752885 BB 905.283 3744.472
SNP_A-1997709 AA 0.02050414 AA 2837.907 427.5475
SNP_A-1997896 AA 0.002742858 AA 1356.146 461.0232
SNP_A-1997922 AA 0.003427134 AA 1110.675 315.9434
SNP_A-2000230 AA 0.007005027 AA 2872.994 1079.967
SNP_A-2000332 AA 0.008886142 AA 3784.796 952.8911
SNP_A-2000337 AA 0.000594436 AA 1897.908 343.5215
SNP_A-2000342 AA 0.002298163 AA 3826.586 1045.939
SNP_A-4268173 AA 0.002564354 AA 1688.135 258.1366

Total number of rows: 909622

Table truncated, full table size 44100 Kbytes.

Supplementary file Size Download File type/resource
GSM463236_071218CHM047.CEL.gz 32.1 Mb (ftp)(http) CEL
GSM463236_071218CHM047.CN5.CNCHP.txt.gz 20.4 Mb (ftp)(http) TXT
GSM463236_071218CHM047.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