After performing GWAS analysis for some traits , what type of work we can do to advance the same work , I mean what could be the post GWAS studies ?

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Does increasing the number of individuals by copy-paste of the same indvs to perform GWAS affect the results?

I am trying to perform a genome-wide association on mitogenome variants (obtained from GATK-Mutect2) vs. phenotypes by using GAPIT. The number of individuals is seven and GAPIT function does not...

14 December 2020 8,853 3 View

How can we perform a GWAS analysis of a qualitative trait through GAPIT?

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18 July 2020 9,541 5 View

Is there any minimum sample size required for GWAS?

I am investigating on SNP-trait association in a species with a narrow genetic base. I have phenotyped and genotyped 80 accessions. I would like to use GWAS for the association analysis. From...

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How can I merge two PED/MAP file sets from different chromosome builds for GWAS study in PLINK?

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Can someone please help with inputting PLINK assoc.logistic output files into METAL to perform a meta-analysis?

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07 June 2020 5,831 1 View

How to convert genotype file format .gen file into sample id and phenotype file format .sample file ?

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31 May 2020 2,795 1 View

Should I test for HWE in dataset of inbred animals without random mating?

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18 March 2020 3,103 3 View

What mistake in GAPIT could lead to high FDR adjusted P-values?

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18 March 2020 8,080 3 View

What are the inputs for an EWAS meta-analysis in METAL?

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12 February 2020 2,922 3 View

What are the inputs for an EWAS meta-analysis in METAL?

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01 February 2020 1,977 2 View

Kuldeep Kumar

You can go for allelic effect of the MTA, LD lock analysis to get the genes in LD, their expression analysis.

Uttarayan Dasgupta

For post GWAS studies you can use transcriptomics between contrasting genotypes for the particular nutrional trait by taking RNA samples at appropriate stages for RNA-Seq(e.g. grain filling stage in cereals for seed protein content)