COVID19-hg GWAS meta-analyses round 5

Release Date

January 18, 2021

Study Abbreviations
Full NameAbbreviation
Amsterdam UMC COVID study groupAmsterdam_UMC_COVID_study_group
AncestryAncestry
Genetic determinants of COVID-19 complications in the Brazilian populationBRACOVID
Genetic modifiers for COVID-19 related illnessBelCovid
Biobanque Quebec COVID19BQC19
deCODEDECODE
(Genetics of COVID-related Manifestation)Corea
Estonian BiobankEstBB
FinnGenFinnGen
GEN-COVID, reCOVIDGENCOVID
genomiCCgenomicc
Genes & HealthGNH
Generation ScotlandGS
COVID19-Host(a)geHOSTAGE
Helix Exome+ COVID-19 PhenotypesHelix
UK Blood Donors CohortINTERVAL
Michigan Genomics InitiativeMGI
Million Veterans ProgramMVP
Netherlands Twin RegisterNTR
Partners Healthcare BiobankPHBB
Penn Medicine BiobankPMBB
Qatar Genome ProgramQGP
Determining the Molecular Pathways and Genetic Predisposition of the Acute Inflammatory Process Caused by SARS-CoV-2SPGRX
Genomic epidemiology of SARS-Cov-2 and host genetics in Coronavirus Disease 2019 (COVID-19)Stanford
The genetic predisposition to severe COVID-19SweCovid
UK BiobankUKBB
Bonn Study of COVID19 geneticsBoSCO
23andMe23ANDME
Italy COVID19-Host(a)geItaly_HOSTAGE
Spain COVID19-Host(a)geSpain_HOSTAGE
Genomics Englandgenomicsengland100kgp
LifelinesLifelines
Gene RiskGeneRISK
Rotterdam StudyRS
Columbia University COVID19 BiobankCU
Geisinger Health SystemGHS_Freeze_145
Japan Coronavirus TaskforceJapanTaskForce
24Geneticsidipaz24genetics
FHoGIDFHoGID
UCLA Precision Health COVID-19 BiobankUCLA
Genetic influences on severity of COVID-19 illness in KoreaGenetics_COVID19_Korea
Latvia COVID-19 research platformLGDB
ACCOuNTACCOuNT
Vanderbilt BiobankBioVU
The Colorado Center for Personalized MedicineCCPM
Genomes for LifeGCAT
Genes for GoodGFG
Genotek COVID-19 studyGenotek
Mount Sinai Health System COVID-19 Genomics InitiativeMSHS_CGI
CHRISTOPMed_CHRIS10K
Data Columns
Column NameDescription
#CHRchromosome
POSchromosome position
REFreference and non-effect allele
ALTalternative and effect allele (beta is for this allele)
SNP#CHR:POS:REF:ALT
all_meta_Nnumber of studies that had the variant after AF and INFO filtering and as such were used for the meta
all_inv_var_meta_betaeffect size on log(OR) scale
all_inv_var_meta_sebetastandard error of effect size
all_inv_var_meta_pp-value
all_inv_var_het_pp-value from Cochran's Q heterogeneity test
all_meta_sample_Ntotal sample size
all_meta_AFallele frequency in the meta-analysis
rsidrisd
Release Notes

Meta-analysis was done with fixed effects inverse variance weighting. Results are available in genome builds 38 and 37. An AF filter of 0.001 and an INFO filter of 0.6 was applied to each study before meta.

Extras

**New** the full downloads below do not contain the 23andMe samples (the most well-powered analyses), however the top 10K SNPs from analyses that include 23andMe samples are available here.

There are additional leave-one-out results not listed here available at this storage bucket: gs://covid19-hg-public/20201215/results/20210107. You will need gsutil to list and download these files.

Note: variants with heterogeneity p-value less than 0.001 across studies are in green.

k
A2_ALL_leave_23andme

Phenotype

Very severe respiratory confirmed covid vs. population

Population

All

Total Cases

5582

Total Controls

709010

Contributing Studies
Namen_casesn_controls
BQC19_EUR88552
BRACOVID_AMR5391149
BelCovid_EUR1821477
CU_AFR1332610
CU_EUR2032149
FinnGen_FIN68238643
GENCOVID_EUR7242443
GHS_Freeze_145_EUR53112862
JapanTaskForce_EAS1551705
SweCovid_EUR773748
UKBB_EUR309328577
genomicc_EAS149745
idipaz24genetics_EUR5975
Amsterdam_UMC_COVID_study_group_EUR661413
SPGRX_EUR101302
genomicc_EUR16768380
Italy_HOSTAGE_EUR6981255
Spain_HOSTAGE_EUR302925
Downloads
A2_ALL_leave_UKBB

Phenotype

Very severe respiratory confirmed covid vs. population

Population

All

Total Cases

5870

Total Controls

1155203

Contributing Studies
Namen_casesn_controls
BQC19_EUR88552
BRACOVID_AMR5391149
BelCovid_EUR1821477
CU_AFR1332610
CU_EUR2032149
FinnGen_FIN68238643
GENCOVID_EUR7242443
GHS_Freeze_145_EUR53112862
JapanTaskForce_EAS1551705
SweCovid_EUR773748
genomicc_EAS149745
idipaz24genetics_EUR5975
Amsterdam_UMC_COVID_study_group_EUR661413
SPGRX_EUR101302
genomicc_EUR16768380
Italy_HOSTAGE_EUR6981255
Spain_HOSTAGE_EUR302925
23ANDME_EUR495680440
23ANDME_HIS10294330
Downloads
A2_ALL_eur

Phenotype

Very severe respiratory confirmed covid vs. population

Population

Eur

Total Cases

5101

Total Controls

1383241

Contributing Studies
Namen_casesn_controls
BQC19_EUR88552
BelCovid_EUR1821477
CU_EUR2032149
FinnGen_FIN68238643
GENCOVID_EUR7242443
GHS_Freeze_145_EUR53112862
SweCovid_EUR773748
UKBB_EUR309328577
idipaz24genetics_EUR5975
Amsterdam_UMC_COVID_study_group_EUR661413
SPGRX_EUR101302
genomicc_EUR16768380
Italy_HOSTAGE_EUR6981255
Spain_HOSTAGE_EUR302925
23ANDME_EUR495680440
Downloads
A2_ALL_eur_leave_ukbb

Phenotype

Very severe respiratory confirmed covid vs. population

Population

Eur

Total Cases

4792

Total Controls

1054664

Contributing Studies
Namen_casesn_controls
BQC19_EUR88552
BelCovid_EUR1821477
CU_EUR2032149
FinnGen_FIN68238643
GENCOVID_EUR7242443
GHS_Freeze_145_EUR53112862
SweCovid_EUR773748
idipaz24genetics_EUR5975
Amsterdam_UMC_COVID_study_group_EUR661413
SPGRX_EUR101302
genomicc_EUR16768380
Italy_HOSTAGE_EUR6981255
Spain_HOSTAGE_EUR302925
23ANDME_EUR495680440
Downloads
B1_ALL_leave_23andme

Phenotype

Hospitalized covid vs. not hospitalized covid

Population

All

Total Cases

5773

Total Controls

15497

Contributing Studies
Namen_casesn_controls
BelCovid_EUR361122
BoSCO_EUR212512
EstBB_EUR60512
FHoGID_EUR362259
FinnGen_FIN106520
GENCOVID_EUR892249
GNH_SAS1151264
UCLA_AMR9574
UCLA_EUR80123
UKBB_AFR71119
UKBB_EUR16704610
UKBB_SAS71230
SPGRX_EUR31151
DECODE_EUR891808
PMBB_AFR66100
QGP_ARAB60640
MVP_AFR349862
MVP_EUR4361083
MVP_HIS117392
Ancestry_EUR2501967
Downloads
B1_ALL_leave_UKBB

Phenotype

Hospitalized covid vs. not hospitalized covid

Population

All

Total Cases

3961

Total Controls

10538

Contributing Studies
Namen_casesn_controls
BelCovid_EUR361122
BoSCO_EUR212512
EstBB_EUR60512
FHoGID_EUR362259
FinnGen_FIN106520
GENCOVID_EUR892249
GNH_SAS1151264
UCLA_AMR9574
UCLA_EUR80123
SPGRX_EUR31151
DECODE_EUR891808
PMBB_AFR66100
QGP_ARAB60640
MVP_AFR349862
MVP_EUR4361083
MVP_HIS117392
Ancestry_EUR2501967
Downloads
B1_ALL_eur

Phenotype

Hospitalized covid vs. not hospitalized covid

Population

Eur

Total Cases

4829

Total Controls

11816

Contributing Studies
Namen_casesn_controls
BelCovid_EUR361122
BoSCO_EUR212512
EstBB_EUR60512
FHoGID_EUR362259
FinnGen_FIN106520
GENCOVID_EUR892249
UCLA_EUR80123
UKBB_EUR16704610
SPGRX_EUR31151
DECODE_EUR891808
MVP_EUR4361083
Ancestry_EUR2501967
Downloads
B1_ALL_eur_leave_ukbb

Phenotype

Hospitalized covid vs. not hospitalized covid

Population

Eur

Total Cases

3159

Total Controls

7206

Contributing Studies
Namen_casesn_controls
BelCovid_EUR361122
BoSCO_EUR212512
EstBB_EUR60512
FHoGID_EUR362259
FinnGen_FIN106520
GENCOVID_EUR892249
UCLA_EUR80123
SPGRX_EUR31151
DECODE_EUR891808
MVP_EUR4361083
Ancestry_EUR2501967
Downloads
B2_ALL_leave_23andme

Phenotype

Hospitalized covid vs. population

Population

All

Total Cases

12888

Total Controls

1295966

Contributing Studies
Namen_casesn_controls
BQC19_EUR244396
BRACOVID_AMR853835
BelCovid_EUR3631477
CU_AFR3042610
CU_EUR4532149
EstBB_EUR90196339
FinnGen_FIN106238605
GENCOVID_EUR8932443
GHS_Freeze_145_EUR180112862
GNH_SAS11534049
Genetics_COVID19_Korea_EAS6246549
JapanTaskForce_EAS5721705
LGDB_EUR571531
UCLA_AMR954569
UCLA_EUR8017514
UKBB_AFR717691
UKBB_EUR1670328577
UKBB_SAS719231
idipaz24genetics_EUR10675
Amsterdam_UMC_COVID_study_group_EUR1081413
SPGRX_EUR311302
DECODE_EUR89274322
PMBB_AFR668536
QGP_ARAB6013360
MVP_AFR3491745
MVP_EUR4362180
MVP_HIS117585
Corea_EAS696500
HOSTAGE_EUR16102205
BoSCO_EUR212512
FHoGID_EUR362259
Ancestry_EUR2501967
SweCovid_EUR773748
genomicc_EAS149745
genomicc_EUR16768380
Downloads
B2_ALL_leave_UKBB

Phenotype

Hospitalized covid vs. population

Population

All

Total Cases

11829

Total Controls

1725210

Contributing Studies
Namen_casesn_controls
BQC19_EUR244396
BRACOVID_AMR853835
BelCovid_EUR3631477
CU_AFR3042610
CU_EUR4532149
EstBB_EUR90196339
FinnGen_FIN106238605
GENCOVID_EUR8932443
GHS_Freeze_145_EUR180112862
GNH_SAS11534049
Genetics_COVID19_Korea_EAS6246549
JapanTaskForce_EAS5721705
LGDB_EUR571531
UCLA_AMR954569
UCLA_EUR8017514
idipaz24genetics_EUR10675
Amsterdam_UMC_COVID_study_group_EUR1081413
SPGRX_EUR311302
DECODE_EUR89274322
PMBB_AFR668536
QGP_ARAB6013360
MVP_AFR3491745
MVP_EUR4362180
MVP_HIS117585
Corea_EAS696500
HOSTAGE_EUR16102205
23ANDME_EUR613680416
23ANDME_HIS14094327
BoSCO_EUR212512
FHoGID_EUR362259
Ancestry_EUR2501967
SweCovid_EUR773748
genomicc_EAS149745
genomicc_EUR16768380
Downloads
B2_ALL_eur

Phenotype

Hospitalized covid vs. population

Population

Eur

Total Cases

9986

Total Controls

1877672

Contributing Studies
Namen_casesn_controls
BQC19_EUR244396
BelCovid_EUR3631477
CU_EUR4532149
EstBB_EUR90196339
FinnGen_FIN106238605
GENCOVID_EUR8932443
GHS_Freeze_145_EUR180112862
LGDB_EUR571531
UCLA_EUR8017514
UKBB_EUR1670328577
idipaz24genetics_EUR10675
Amsterdam_UMC_COVID_study_group_EUR1081413
SPGRX_EUR311302
DECODE_EUR89274322
MVP_EUR4362180
HOSTAGE_EUR16102205
23ANDME_EUR613680416
BoSCO_EUR212512
FHoGID_EUR362259
Ancestry_EUR2501967
SweCovid_EUR773748
genomicc_EUR16768380
Downloads
B2_ALL_eur_leave_ukbb

Phenotype

Hospitalized covid vs. population

Population

Eur

Total Cases

8316

Total Controls

1549095

Contributing Studies
Namen_casesn_controls
BQC19_EUR244396
BelCovid_EUR3631477
CU_EUR4532149
EstBB_EUR90196339
FinnGen_FIN106238605
GENCOVID_EUR8932443
GHS_Freeze_145_EUR180112862
LGDB_EUR571531
UCLA_EUR8017514
idipaz24genetics_EUR10675
Amsterdam_UMC_COVID_study_group_EUR1081413
SPGRX_EUR311302
DECODE_EUR89274322
MVP_EUR4362180
HOSTAGE_EUR16102205
23ANDME_EUR613680416
BoSCO_EUR212512
FHoGID_EUR362259
Ancestry_EUR2501967
SweCovid_EUR773748
genomicc_EUR16768380
Downloads
C2_ALL_leave_23andme

Phenotype

Covid vs. population

Population

All

Total Cases

36590

Total Controls

1668938

Contributing Studies
Namen_casesn_controls
ACCOuNT_AFR57799
BQC19_EUR269368
BelCovid_EUR4851477
BioVU_EUR14170615
CCPM_EUR33232375
CU_AFR3322610
CU_EUR5082149
DECODE_EUR4256270934
EstBB_EUR1322193774
FinnGen_FIN810237901
GCAT_EUR2534735
GENCOVID_EUR12202443
GFG_EUR1475442
GHS_Freeze_145_EUR869112862
GNH_SAS137932785
Genotek_EUR67612317
INTERVAL_EUR83840994
JapanTaskForce_EAS6141705
LGDB_EUR2751313
Lifelines_EUR24426553
MSHS_CGI_EUR3301396
Stanford_EUR169190
TOPMed_CHRIS10K_EUR922373
TOPMed_Gardena_EUR452458
UCLA_AMR1694495
UCLA_EUR20317391
UKBB_AFR2067691
UKBB_EUR6490328577
UKBB_SAS3099231
SPGRX_EUR362302
PMBB_AFR1668436
QGP_ARAB70013360
MVP_AFR12176085
MVP_EUR15207600
MVP_HIS5102550
Corea_EAS1086500
genomicsengland100kgp_EUR21862302
Helix_EUR1785441
MGI_EUR12251458
NTR_EUR1455252
PHBB_AFR602445
PHBB_EUR15129966
PHBB_HIS662405
Ancestry_EUR241714933
BRACOVID_AMR853835
Genetics_COVID19_Korea_EAS6246549
idipaz24genetics_EUR10675
Amsterdam_UMC_COVID_study_group_EUR1081413
HOSTAGE_EUR16102205
SweCovid_EUR773748
genomicc_EAS149745
genomicc_EUR16768380
Downloads
C2_ALL_leave_UKBB

Phenotype

Covid vs. population

Population

All

Total Cases

42557

Total Controls

1424707

Contributing Studies
Namen_casesn_controls
ACCOuNT_AFR57799
BQC19_EUR269368
BelCovid_EUR4851477
BioVU_EUR14170615
CCPM_EUR33232375
CU_AFR3322610
CU_EUR5082149
DECODE_EUR4256270934
EstBB_EUR1322193774
FinnGen_FIN810237901
GCAT_EUR2534735
GENCOVID_EUR12202443
GFG_EUR1475442
GHS_Freeze_145_EUR869112862
GNH_SAS137932785
Genotek_EUR67612317
INTERVAL_EUR83840994
JapanTaskForce_EAS6141705
LGDB_EUR2751313
Lifelines_EUR24426553
MSHS_CGI_EUR3301396
Stanford_EUR169190
TOPMed_CHRIS10K_EUR922373
TOPMed_Gardena_EUR452458
UCLA_AMR1694495
UCLA_EUR20317391
SPGRX_EUR362302
PMBB_AFR1668436
QGP_ARAB70013360
MVP_AFR12176085
MVP_EUR15207600
MVP_HIS5102550
Corea_EAS1086500
genomicsengland100kgp_EUR21862302
Helix_EUR1785441
MGI_EUR12251458
NTR_EUR1455252
PHBB_AFR602445
PHBB_EUR15129966
PHBB_HIS662405
Ancestry_EUR241714933
23ANDME_AFR5063110
23ANDME_EUR991385072
23ANDME_HIS255313086
BRACOVID_AMR853835
Genetics_COVID19_Korea_EAS6246549
idipaz24genetics_EUR10675
Amsterdam_UMC_COVID_study_group_EUR1081413
HOSTAGE_EUR16102205
SweCovid_EUR773748
genomicc_EAS149745
genomicc_EUR16768380
Downloads
C2_ALL_eur

Phenotype

Covid vs. population

Population

Eur

Total Cases

38984

Total Controls

1644784

Contributing Studies
Namen_casesn_controls
BQC19_EUR269368
BelCovid_EUR4851477
BioVU_EUR14170615
CCPM_EUR33232375
CU_EUR5082149
DECODE_EUR4256270934
EstBB_EUR1322193774
FinnGen_FIN810237901
GCAT_EUR2534735
GENCOVID_EUR12202443
GFG_EUR1475442
GHS_Freeze_145_EUR869112862
Genotek_EUR67612317
INTERVAL_EUR83840994
LGDB_EUR2751313
Lifelines_EUR24426553
MSHS_CGI_EUR3301396
Stanford_EUR169190
TOPMed_CHRIS10K_EUR922373
TOPMed_Gardena_EUR452458
UCLA_EUR20317391
UKBB_EUR6490328577
SPGRX_EUR362302
MVP_EUR15207600
genomicsengland100kgp_EUR21862302
Helix_EUR1785441
MGI_EUR12251458
NTR_EUR1455252
PHBB_EUR15129966
Ancestry_EUR241714933
23ANDME_EUR991385072
idipaz24genetics_EUR10675
Amsterdam_UMC_COVID_study_group_EUR1081413
HOSTAGE_EUR16102205
SweCovid_EUR773748
genomicc_EUR16768380
Downloads
C2_ALL_eur_leave_ukbb

Phenotype

Covid vs. population

Population

Eur

Total Cases

32494

Total Controls

1316207

Contributing Studies
Namen_casesn_controls
BQC19_EUR269368
BelCovid_EUR4851477
BioVU_EUR14170615
CCPM_EUR33232375
CU_EUR5082149
DECODE_EUR4256270934
EstBB_EUR1322193774
FinnGen_FIN810237901
GCAT_EUR2534735
GENCOVID_EUR12202443
GFG_EUR1475442
GHS_Freeze_145_EUR869112862
Genotek_EUR67612317
INTERVAL_EUR83840994
LGDB_EUR2751313
Lifelines_EUR24426553
MSHS_CGI_EUR3301396
Stanford_EUR169190
TOPMed_CHRIS10K_EUR922373
TOPMed_Gardena_EUR452458
UCLA_EUR20317391
SPGRX_EUR362302
MVP_EUR15207600
genomicsengland100kgp_EUR21862302
Helix_EUR1785441
MGI_EUR12251458
NTR_EUR1455252
PHBB_EUR15129966
Ancestry_EUR241714933
23ANDME_EUR991385072
idipaz24genetics_EUR10675
Amsterdam_UMC_COVID_study_group_EUR1081413
HOSTAGE_EUR16102205
SweCovid_EUR773748
genomicc_EUR16768380
Downloads