SNP statistical analysis

Question

[arash.iranzadeh1980]

Hi, I am doing a genome wide association study on a series of SNPs. I have confronted many statistical tests like logistic regression, fisher exact test, association test, Chi square etc. Is there any good reference or reading materials for studying these tests on SNPs. I need examples with numerical values to understand how to interpret the final results.

Answer 1

[Kevin Blighe]

My recommendation to you would be to start looking through the PLINK documentation, which is very comprehensive and provides explanations on the majority of statistical tests used in the realm of GWAS.

The documentation can be found here: http://zzz.bwh.harvard.edu/plink/

If you want to elaborate more on a specific analysis, search via a search engine.

Kevin

Answer 2

[AlexRT]

A couple of interesting reads on GWAS and SNPs, complementing PLINK documentation:

https://www.nature.com/articles/nprot.2010.116 https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3154648/ https://www.frontiersin.org/articles/10.3389/fgene.2015.00149/full

Alex