Crohn's Disease WES meta results

<p>Synopsis</p> <p>IBD exome-wide assocaition statistics from the meta-analysis of two callsets: Nextera and Twist. We used the fixed-effect meta-analysis in&nbsp;<a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2922887/">METAL</a>. Column headers are self-explanatory. Allele2 is the tested/effect allele.</p> <p>Code availability</p> <p>Computer code used in this study:</p> <ul> <li>Hail (quality control, variants effect annotation;&nbsp;<a href="https://hail.is/">https://hail.is</a>)</li> <li>SAIGE (variant-based and gene-based association test;&nbsp;<a href="https://github.com/weizhouUMICH/SAIGE">https://github.com/weizhouUMICH/SAIGE</a>)</li> <li>METAL (meta-analysis;&nbsp;<a href="https://genome.sph.umich.edu/wiki/METAL_Documentation">https://genome.sph.umich.edu/wiki/METAL_Documentation</a>)</li> <li>PLINK (ancestry assignment, IBD relatedness QC and sample heterozygosity QC; plink1.9,&nbsp;<a href="https://www.cog-genomics.org/plink/">https://www.cog-genomics.org/plink/</a>; sample level QC pipeline,&nbsp;<a href="https://github.com/Annefeng/PBK-QC-pipeline">https://github.com/Annefeng/PBK-QC-pipeline</a>)</li> </ul> <p>Citation</p> <p><a href="https://www.medrxiv.org/content/10.1101/2021.06.15.21258641v2">Sazonovs, Stevens, Venkataraman, Yuan et al., MedRxiv, 2021</a></p>