This track set shows GWAS meta-analyses from the -COVID-19 Host Genetics Initiative (HGI), -a collaborative project bringing together the human genetics community to facilitate +COVID-19 Host Genetics Initiative (HGI): +a collaborative effort to facilitate the generation, analysis and sharing of COVID-19 host genetics research. The COVID-19 HGI organizes meta-analyses across multiple studies contributed by partners world-wide -to learn the genetic determinants of SARS-CoV-2 infection susceptibility, disease severity and -outcomes, and provides a platform to share the results from such activities, as well as -the individual-level data where possible. +to identify the genetic determinants of SARS-CoV-2 infection susceptibility and disease severity +and outcomes. Moreover, the COVID-19 HGI also aims to provide a platform for study partners to +share analytical results in the form of summary statistics and/or individual level data where +possible.
+-The specific phenotypes studied by the COVID-19 HGI are those that benefit -from maximal sample size. The primary analysis focuses on disease severity. -Two meta-analyses are represented in this track: +The specific phenotypes studied by the COVID-19 HGI are those that benefit from maximal sample +size: primary analysis on disease severity. Two meta-analyses are represented in this track:
Displayed items are colored by GWAS effect: red for positive, blue for negative. -The height of the item reflects the effect size (log OR scale). -The color saturation indicates statistical significance: smaller than .05 pValue are -brightly colored (bright red +The height of the item reflects the effect size (beta coefficient). +The color saturation indicates statistical significance: P values smaller than .05 +are brightly colored (bright red , bright blue ), -those with less significance are paler (light red +those with less significance (P >= .05) are paler (light red , light blue -). +). For better visualization of the data, only SNPs with P values smaller than .03 are +displayed by default.
Each track has separate display controls and data can be filtered according to the -number of studies, minimum -log10 p-value, and the -effect size on log(OR) scale, using the track Configure options. +number of studies, minimum -log10 P value, and the +effect size (beta coefficient), using the track Configure options.
Mouseover on items shows the rs ID (or chrom:pos if none assigned), both the non-effect -and effect alleles, -the effect size on log(OR) scale, the -log10 p-value, and the number of studies. +and effect alleles, the effect size (beta coefficient), the P value, and the number of +studies. Additional information on each variant can be found on the details page by clicking on the item.
-Data were generated from genome wide SNP arrays, exome and genome sequencing, leveraging the impact -of both common and rare variants. Statistical analysis takes into account differences between -sex, ancestry, and date of sample collection. More information about the prospective studies, -processing pipeline, results and data sharing can be found +Data were generated from genome-wide SNP array and whole exome and genome sequencing: leveraging +the impact of both common and rare variants. The statistical analysis performed takes into account +differences between sex, ancestry, and date of sample collection. More information about the +prospective studies, processing pipeline, results and data sharing can be found here.
The data underlying these tracks and summary statistics results are publicly available in COVID19-hg Release 3 (June 2020). The raw data can be explored interactively with the Table Browser, or the Data Integrator. Please refer to our mailing list archives for questions, or our Data Access FAQ for more information.
Thanks to the COVID-19 Host Genetics Initiative contributors and project leads for making these -data available, and in particular to Rachel Liao and Juha Karjalainen at the Broad Institute for -their review and input during browser track development. +data available, and in particular to Rachel Liao, Juha Karjalainen, and Kumar Veerapen at the +Broad Institute for their review and input during browser track development.
COVID-19 Host Genetics Initiative. The COVID-19 Host Genetics Initiative, a global initiative to elucidate the role of host genetic factors in susceptibility and severity of the SARS-CoV-2 virus pandemic. Eur J Hum Genet. 2020 Jun;28(6):715-718. PMID: 32404885; PMC: PMC7220587