GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM463226 Query DataSets for GSM463226
Status Public on May 17, 2010
Title CHM034
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 0.002214899 AA 3695.073 841.9775
SNP_A-1967418 BB 0.004441964 BB 316.3323 960.1835
SNP_A-1969580 BB 0.00117782 BB 1399.255 4708.072
SNP_A-4263484 AA 0.003553806 AA 2900.04 424.3478
SNP_A-1978185 AA 0.002818145 AA 1668.31 327.8995
SNP_A-4264431 BB 0.003612944 BB 568.8787 1550.468
SNP_A-1980898 BB 0.01062126 BB 171.333 903.2139
SNP_A-1983139 AA 0.004041504 AA 2370.896 733.3396
SNP_A-4265735 AA 0.001963829 AA 1284.533 460.1839
SNP_A-1995832 AA 0.006659022 AA 2581.103 447.6913
SNP_A-1995893 AA 0.0004227435 AA 2310.066 1081.198
SNP_A-1997689 BB 0.001544701 BB 816.5397 4499.717
SNP_A-1997709 AA 0.01926456 AA 2286.297 427.3417
SNP_A-1997896 AA 0.006554024 AA 1487.389 594.3002
SNP_A-1997922 AA 0.001153707 AA 1139.927 271.8423
SNP_A-2000230 AA 0.003185921 AA 3033.25 1231.138
SNP_A-2000332 AA 0.001266667 AA 3219.366 847.5873
SNP_A-2000337 AA 0.01153946 AA 1519.57 266.8783
SNP_A-2000342 AA 0.002073508 AA 3864.023 877.1271
SNP_A-4268173 AA 0.01527966 AA 1739.673 440.9109

Total number of rows: 909622

Table truncated, full table size 44127 Kbytes.

Supplementary file Size Download File type/resource
GSM463226_071218CHM034.CEL.gz 31.9 Mb (ftp)(http) CEL
GSM463226_071218CHM034.CN5.CNCHP.txt.gz 20.4 Mb (ftp)(http) TXT
GSM463226_071218CHM034.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