Release Date
May 15, 2020
Study Abbreviations
| Full Name | Abbreviation |
|---|---|
| BioMe | BioMe_RGN |
| FinnGen | FinnGen |
| Genes & Health | GNH |
| Helix Exome+ COVID-19 Phenotypes | Helix |
| LifeLines Global Screening Array | LifelinesCyto |
| LifeLines CytoSNP | LifelinesGsa |
| Netherlands Twin Register | NTR |
| Partners Healthcare Biobank | PHBB |
| UK Biobank | UKBB |
Data Columns
| Column Name | Description |
|---|---|
| #CHR | chromosome |
| POS | chromosome position in build 37 |
| REF | non-effect allele |
| ALT | effect allele (beta is for this allele) |
| SNP | #CHR:POS:REF:ALT |
| {STUDY}_AF_Allele2 | allele frequency in {STUDY} |
| all_meta_N | number of studies that had the variant after AF and INFO filtering and as such were used for the meta |
| all_inv_var_meta_beta | effect size on log(OR) scale |
| all_inv_var_meta_sebeta | standard error of effect size |
| all_inv_var_meta_p | p-value |
| all_inv_var_het_p | p-value from Cochran's Q heterogeneity test |
Release Notes
Meta-analysis was done with inverse variance weighting. Positions are on GRCh37. An AF filter of 0.0001 and an INFO filter of 0.6 was applied to each study prior to meta-analysis.
20200508-results-ANA2_inv_var_meta
Phenotype
ANA2, Hospitalized vs. non-hospitalized
Population
All
Total Cases
716
Total Controls
616
Contributing Studies
| Name | n_cases | n_controls |
|---|---|---|
| FinnGen_FIN | 30 | 179 |
| GNH_SAS | 34 | 13 |
| LifelinesGsa_EUR | 6 | 183 |
| PHBB_EUR | 17 | 57 |
| UKBB_EUR | 629 | 184 |
Downloads
GRCh37: COVID19_HGI_ANA2_20200513.txt.gz
GRCh37 (.tbi): COVID19_HGI_ANA2_20200513.txt.gz.tbi
20200508-results-ANA5_ALL_inv_var_meta
Phenotype
ANA5, susceptibility (affected vs. population)
Population
All
Total Cases
1678
Total Controls
674635
Contributing Studies
| Name | n_cases | n_controls |
|---|---|---|
| BioMe_RGN_EUR | 20 | 10169 |
| FinnGen_FIN | 209 | 203431 |
| GNH_SAS | 64 | 27351 |
| LifelinesCyto_EUR | 62 | 5750 |
| LifelinesGsa_EUR | 189 | 15975 |
| NTR_CEU | 163 | 3160 |
| PHBB_AFR | 34 | 2169 |
| PHBB_EUR | 74 | 28950 |
| UKBB_AFR | 51 | 6585 |
| UKBB_EUR | 812 | 371095 |
Downloads
GRCh37: COVID19_HGI_ANA5_20200513.txt.gz
GRCh37 (.tbi): COVID19_HGI_ANA5_20200513.txt.gz.tbi
20200508-results-ANA7_inv_var_meta
Phenotype
ANA7, COVID-19 predicted by flu-like symptoms
Population
European
Total Cases
1294
Total Controls
26969
Contributing Studies
| Name | n_cases | n_controls |
|---|---|---|
| LifelinesGsa_EUR | 443 | 15406 |
| LifelinesCyto_EUR | 194 | 5451 |
| Helix_EUR | 657 | 6112 |
Downloads
GRCh37: COVID19_HGI_ANA7_20200513.txt.gz
GRCh37 (.tbi): COVID19_HGI_ANA7_20200513.txt.gz.tbi