NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM853345 Query DataSets for GSM853345
Status Public on Dec 19, 2014
Title Colon Tissue Sample_81
Sample type genomic
 
Source name Colon tissue, tumor
Organism Homo sapiens
Characteristics disease state: colorectal cancer (CRC)
tissue: colon tumor
Extracted molecule genomic DNA
Extraction protocol QIAGEN Gentra Puregene kit standard protocol.
Label C-Bio and A-DNP
Label protocol Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using automation with the Tecan Evo robot.
 
Hybridization protocol Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using automation with the Tecan Evo robot.
Scan protocol Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using the Illumina BeadArray scanner.
Data processing Illumina BeadStudio v3.3.4 normalized intensity values and BAF data were imported into PARTEK Genomics Suite for statistical analysis.
 
Submission date Dec 23, 2011
Last update date Dec 19, 2014
Contact name Muhammad Ghulam Kibriya
E-mail(s) kibriya@uchicago.edu
Organization name The University of Chicago
Department Health Studies
Street address 900 E 57th Street
City Chicago
ZIP/Postal code 60637
Country USA
 
Platform ID GPL13829
Series (1)
GSE34678 A Genome-wide Study of Cytogenetic Changes in Colorectal Cancer Using SNP Microarrays: Possibilities for Future Personalized Treatment

Data table header descriptions
ID_REF
VALUE Genotype: AA, AB, BB, or NC (no call)
Score Score
Theta Theta
R R
B Allele Freq BAF
Log R Ratio Log R Ratio

Data table
ID_REF VALUE Score Theta R B Allele Freq Log R Ratio
cnvi0111185 NC 0 0.9836577 1.293329 1 -0.168325
cnvi0111186 NC 0 0.01031484 0.5498885 0 0.1429745
cnvi0111187 NC 0 0.9860875 1.304219 1 -0.2284297
cnvi0111188 NC 0 0.01566098 1.21132 0.000953724 -0.107485
cnvi0111189 NC 0 0.0297371 1.358112 0.003572824 -0.08670858
cnvi0111190 NC 0 0 0.4460086 0 0.3139416
cnvi0111191 NC 0 0.02993797 0.4175544 0.001351108 -1.396795
cnvi0111192 NC 0 0.02011391 1.058161 0 -0.07409951
cnvi0111193 NC 0 0.007339679 1.17915 0 -0.04207626
cnvi0111194 NC 0 0.9889066 1.252713 1 -0.08713841
cnvi0111195 NC 0 0.02757182 2.189367 0 0.1651221
cnvi0111196 NC 0 0.9837365 1.074435 1 -0.192132
cnvi0111197 NC 0 0.009894647 0.966733 0 0.1149843
cnvi0111198 NC 0 0.9714187 1.232356 1 -0.07380259
cnvi0111199 NC 0 0.008570444 1.278744 0 0.008168673
cnvi0111200 NC 0 0.993578 0.9313239 1 0.07854971
cnvi0111201 NC 0 0.02564294 0.8849197 0.00751482 -0.06377147
cnvi0111202 NC 0 0.9487869 1.30476 1 -0.03110657
cnvi0111203 NC 0 0.04525676 1.904665 0.0213599 0.2011024
cnvi0111204 NC 0 0.9954491 1.41774 1 0.2186174

Total number of rows: 299140

Table truncated, full table size 17173 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap