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Sample GSM1655619 Query DataSets for GSM1655619
Status Public on Feb 29, 2016
Title JVE044_snp
Sample type genomic
 
Source name CRC
Organism Homo sapiens
Characteristics tissue: colorectal cancer
gender: F
tumor location: Rectum
tumor type: --
tumor stage (dukes): --
Extracted molecule genomic DNA
Extraction protocol DNA was isolated using the Wizard genomic DNA isolation kit
Label Cy3,Cy5
Label protocol 200 ng of DNA was labelled according to the standard illumina protocol
 
Hybridization protocol Standard illumina protocol
Scan protocol Standard illumina protocol
Description Genomic DNA isolated from novel CRC cell lines was genotyped using the Illumina HumanExome-12 v1.0 BeadChip
Data processing Data were processed in GenomeStudio. The file HumanExome-12_v1.0_signal.txt contains the raw signals and is available on the series record.
 
Submission date Apr 10, 2015
Last update date Feb 29, 2016
Contact name Arnoud Boot
Organization name Duke-NUS Medical School
Street address 8 college road
City Singapore
State/province Singapore
ZIP/Postal code 169857
Country Singapore
 
Platform ID GPL18544
Series (2)
GSE67773 SNP-array profiling of 21 novel primary and metastatic colorectal cancer cell lines [Illumina HumanExome-12 v1.0 BeadChip]
GSE67775 Omics profiling of 21 novel primary and metastatic colorectal cancer cell lines

Data table header descriptions
ID_REF
VALUE genotype call
JVE044_B_Allele_Freq
JVE044_GC_SCORE
JVE044_Log_R_Ratio
JVE044_R
JVE044_Theta

Data table
ID_REF VALUE JVE044_B_Allele_Freq JVE044_GC_SCORE JVE044_Log_R_Ratio JVE044_R JVE044_Theta
exm-IND1-200449980-0_M_R_1990486447 BB 0.9953 0.404 0.1973 0.397 0.974
exm-IND1-201453487-0_M_R_1990486448 BB 0.9993 0.9136 -0.0174 1.149 0.992
exm-IND1-85310248-0_P_F_1990486624 AA 0.0011 0.8485 0.2896 0.6 0.01
exm-IND10-102817747-0_P_F_1990486569 BB 0.9919 0.838 -0.0728 1.009 0.977
exm-IND10-18329639-0_M_R_1990486442 AA 0.0059 0.4358 -0.2235 1.089 0.049
exm-IND10-27476467-0_M_R_1990486443 BB 1 0.8748 0.0739 1.348 0.994
exm-IND10-27727540-0_M_R_1990486444 BB 0.9985 0.9589 -0.3483 0.516 0.984
exm-IND10-74560589-0_P_F_1990486573 AA 0.0064 0.9469 0.0049 0.572 0.029
exm-IND11-102094357-0_P_F_1990486575 AA 0.0041 0.7873 0.0424 1.524 0.007
exm-IND11-60867390-0_M_R_1990486445 BB 0.9962 0.8699 -0.2501 0.605 0.957
exm-IND11-73463127-0_P_F_1990486580 AA 5.00E-04 0.7674 0.0555 1.524 0.018
exm-IND12-4584372-0_P_F_1990486581 AA 0.0183 0.7497 0.1487 1.642 0.034
exm-IND12-46829523-0_M_R_1990486450 AA 0.0039 0.7742 0.1739 1.642 0.011
exm-IND12-49036005-0_P_F_1990486582 AA 0.0097 0.8497 -0.0224 0.92 0.027
exm-IND12-51232970-0_P_F_1990486584 BB 1 0.8459 0.1303 0.996 0.977
exm-IND12-54361914-0_M_R_1990486452 AA 0.0222 0.6786 0.0212 1.827 0.049
exm-IND12-67380833-0_P_F_1990486586 AA 0.0111 0.5335 0.0869 0.755 0.018
exm-IND12-83947680-0_M_R_1990486453 AA 0.0117 0.7839 -0.3836 0.306 0.023
exm-IND12-8887191-0_M_R_1990486455 BB 0.9975 0.9335 0.0917 0.923 0.988
exm-IND13-47565698-0_P_F_1990486590 AA 0.0057 0.8752 0.4518 1.381 0.024

Total number of rows: 247870

Table truncated, full table size 15122 Kbytes.




Supplementary file Size Download File type/resource
GSM1655619_7539041023_R02C02_Grn.idat.gz 2.1 Mb (ftp)(http) IDAT
GSM1655619_7539041023_R02C02_Red.idat.gz 2.0 Mb (ftp)(http) IDAT
Processed data included within Sample table

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