Introduction
This webpage demonstrates a capstone project for completion of the MHS degree in bioinformatics at Johns Hopkins School of Public Health. The goal of this project was to create a web implementation to visualize genetic association analysis results. Currently, this tool allows for single-SNP and haplotype-based analysis in case-parent trios. Plots are generated to show p values, effect sizes, and indicators of the risk allele for each SNP/haplotype to help visualize a consensus of risk alleles in haplotypes in the same graphic. The single-SNP analyses are carried out in R using the genotype-TDT conditional logistic regression method implemented by David Clayton (http://www-gene.cimr.cam.ac.uk/clayton/). The haplotype analyses are run using the hbat procedure in the FBAT package created by Laird et al(http://biosun1.harvard.edu/~fbat/).
This application was developed by Euiju Jung (Johns Hopkins Bloomberg School of Public Health) under the mentorship of Dr. M. Daniele Fallin and through the bioinformatics masters degree program advised by Dr. Fernando Pineda.