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Sample GSM853251 Query DataSets for GSM853251
Status Public on Dec 19, 2014
Title Colon Tissue Sample_111
Sample type genomic
 
Source name Colon tissue, normal
Organism Homo sapiens
Characteristics disease state: colorectal cancer (CRC)
tissue: normal colon mucosa
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 0.9839814 1.379109 1 -0.07567756
cnvi0111186 NC 0 0.007115414 0.4902857 0 -0.02254188
cnvi0111187 NC 0 0.983483 1.368878 0.9982677 -0.1586228
cnvi0111188 NC 0 NaN NaN NaN NaN
cnvi0111189 NC 0 0.01923405 1.597105 0 0.147148
cnvi0111190 NC 0 0.0003993878 0.3738759 0 0.05942965
cnvi0111191 NC 0 0.0248546 0.4773436 0 -1.203731
cnvi0111192 NC 0 0.0106759 1.265124 0 0.18362
cnvi0111193 NC 0 0.001344882 1.146242 0 -0.08291209
cnvi0111194 NC 0 0.9879019 1.243433 1 -0.09786538
cnvi0111195 NC 0 0.02112029 2.271559 0 0.2182915
cnvi0111196 NC 0 0.9846758 1.066239 1 -0.2031792
cnvi0111197 NC 0 0.005544773 0.9368394 0 0.06966849
cnvi0111198 NC 0 0.9838309 1.081518 1 -0.2621643
cnvi0111199 NC 0 0.005053112 1.544404 0 0.2804907
cnvi0111200 NC 0 0.9898221 0.8801997 1 -0.002902437
cnvi0111201 NC 0 0.01286568 0.7793848 0 -0.2469822
cnvi0111202 NC 0 0.9364551 1.438018 1 0.1091906
cnvi0111203 NC 0 0.04195603 2.099629 0.0178879 0.3417
cnvi0111204 NC 0 0.986488 1.292645 0.9979882 0.08535052

Total number of rows: 299140

Table truncated, full table size 16930 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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