GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM463277 Query DataSets for GSM463277
Status Public on May 17, 2010
Title CHM094
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 0.001727637 AA 3444.435 814.5971
SNP_A-1967418 BB 0.00149587 BB 283.8907 885.324
SNP_A-1969580 BB 0.006448518 BB 1113.593 3880.101
SNP_A-4263484 BB 0.001718646 BB 612.2468 2024.91
SNP_A-1978185 AA 0.001170698 AA 1765.93 449.7035
SNP_A-4264431 BB 0.005777643 BB 508.5586 1296.196
SNP_A-1980898 BB 0.001444045 BB 264.7251 946.0242
SNP_A-1983139 AA 0.004052051 AA 2405.191 755.2169
SNP_A-4265735 AA 0.00917972 AA 1604.077 546.3514
SNP_A-1995832 BB 0.005529955 BB 458.4818 1858.817
SNP_A-1995893 BB 0.003131679 BB 482.1129 2723.473
SNP_A-1997689 BB 0.006174924 BB 647.8548 4331.683
SNP_A-1997709 AA 0.01272052 AA 1452.081 336.4675
SNP_A-1997896 AA 0.002624402 AA 1362.712 462.3906
SNP_A-1997922 BB 0.00115471 BB 492.7307 1176.353
SNP_A-2000230 AA 0.006808061 AA 2784.593 1323.083
SNP_A-2000332 AA 0.00562726 AA 3484.281 1098.503
SNP_A-2000337 AA 0.003348014 AA 1922.759 399.8085
SNP_A-2000342 AA 0.002490656 AA 3708.308 1039.952
SNP_A-4268173 AA 0.001068369 AA 1730.951 303.2577

Total number of rows: 909622

Table truncated, full table size 44072 Kbytes.

Supplementary file Size Download File type/resource
GSM463277_071219CHM094.CEL.gz 31.2 Mb (ftp)(http) CEL
GSM463277_071219CHM094.CN5.CNCHP.txt.gz 20.3 Mb (ftp)(http) TXT
GSM463277_071219CHM094.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