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| Status |
Public on Oct 01, 2014 |
| Title |
Functional Annotation of Colon Cancer Risk SNPs |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
To understand the funtion of Colorectal cancer GWAS results, we perform a comprehensive analysis using biofeatures of HCT116 colon cancer cell line and got a list of risk-asscociated SNP. Risk-associated SNP are likely exerting their effects through promoters or enhancer. In order to understand the importance of the genes with risk-associated SNP in their promoters and enhancers' putatively targeted genes, we did a comparison of these genes between HCT116 colon cancer cell and normal colon and try to understand their function
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| Overall design |
Two biological replicates of HCT116 were compared to the data of two normal colon samples already deposited in GEO (GSM1010974 and GSM1010942).
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| Contributor(s) |
Blattler A, Farnham PJ, Lay F, Jones P |
| Citation(s) |
25268989 |
| |
| Submission date |
Nov 15, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Peggy J Farnham |
| E-mail(s) |
Peggy.Farnham@med.usc.edu
|
| Organization name |
University of Southern California Graduate Student
|
| Department |
GMCB
|
| Street address |
1450 Biggy Street NRT 6503
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90033 |
| Country |
USA |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA228915 |
| SRA |
SRP033057 |
