Computational protocol: The Leptin Gene Family and Colorectal Cancer: Interaction with Smoking Behavior and Family History of Cancer

Similar protocols

Protocol publication

[…] A total of 119 SNP markers with a minor allele frequency (MAF)≥0.1 of LEP and LEPR were downloaded from HapMap (http://www.hapmap.org/) using phase 1 and phase 2 Data Release 24 (Build 36.3) for the Chinese population (Chinese Han from Beijing–CHB). Tag SNPs were chosen for each gene by using Tagger in Haploview (http://www.broadinstitute.org/haploview/haploview). We used the pair-wise mode and selected a minimal set of markers, such that all alleles to be captured would be correlated at an r2≥0.8 with a marker in that set . Finally, LEP and LEPR yielded 4 and 16 tag SNPs, respectively. (). […]

Pipeline specifications

Software tools Tagger, Haploview
Application GWAS
Diseases Metabolic Diseases, Neoplasms, Colorectal Neoplasms