In this module, we will learn more about SNP-Seek, and its application for post-Genome-wide Association analysis.
Overview of post-GWAS analysis
Learn more about SNP-Seek, and its use in post-GWAS data analysis
Introduction to internship special problems
Hands-on exercises and wrap-up
Learning contents (all at Module 4 google drive)
Day 16 (July 25)
Materials for today (gdrive)
What is post-GWAS analysis? (slides)
SNP-Seek (reading materials)
general introduction to SNP-Seek database (slides, datasets)
exploring genotypes across accessions (demo)
exploring genome regions using JBrowse tracks (demo)
tutorial for identifying GWAS region peaks for post-GWAS (slides, demo)
from SNPs list --> genes --> higher order annotation (gene networks, enriched biological themes) - (demo, slides)
Today's recap
Day 18 (July 27)
Fill out topic survey poll (Rock)
Tutorial session (based on survey feedback)
Q &A (doc)
GWAS of our assigned trait update report (template for reporting)
Today's recap
Day 17, 19 (July 26 , 28)
Continuation - consultation with team members (9-11 am blocked time by Rock): Asynchronous days!!!
Q & A (July 28)
Day 20 (July 29)
Supplemental Resources: SNP-Seek and post GWAS references
Mansueto et al. (SNP-Seek publications)
Tandayu et a., example of post-GWAS analysis in another crop (article)