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A second update on mapping the human genetic architecture of COVID-19
Authors
HF Ahmad
S Andrews
+98 more
SJ Andrews
A Auton
MK Balaconis
C Boer
PR Boua
G Butler-Laporte
DG Cabrero
IF Cadenas
CL Cadilla
K Chwialkowska
D Coker
F Colombo
M Cordioli
M Daly
V Douillard
N Dueker
RG Durán
AK Dutta
YM El-Sherbiny
MM Eltoukhy
S Esmaeeli
A Faucon
MJ Fave
T Filshtein-Sonmez
M Francescatto
L Francioli
L Franke
M Fuentes
A Ganna
EN Harry
A Iwasaki
P Jansen
E Kaja
M Kanai
M Kanai
J Karjalainen
C Kirk
A Kousathanas
JE Krieger
A Lemaçon
S Limou
P Lió
E Marouli
MM Marttila
C Medina-Gómez
J Mehtonen
Y Michaeli
I Migeotte
S Mondal
A Moreno-Estrada
L Moya
T Nakanishi
J Nasir
BM Neale
C Nolan
D Pasko
SK Patel
GA Pathak
NM Pearson
AC Pereira
M Pirinen
J Priest
V Prijatelj
I Prokic
AU Remesal
M Romero-Gómez
C Roos
J Rosenfeld
L Ruolin
EC Schulte
C Schurmann
B Sedaghati-khayat
D Shaheen
AJ Shastri
JF Shelton
I Shivanathan
C Sipeky
Z Sirui
C Stevens
P Striano
A Symons
JL Szentpéteri
Y Tanigawa
A Teumer
A Trankiem
N Vadgama
CL Vallerga
S van der Laan
K Veerapen
RA Verdugo
KA von Hohenstaufen Puoti
R Várnai
QS Wang
Z Wei
CH Weldon
BN Wolford
UA Zainulabid
RN Zárate
Publication date
6 September 2023
Publisher
Springer Nature
Doi
Abstract
Matters Arising From: COVID-19 Host Genetics Initiative. Nature https://doi.org/10.1038/s41586-021-03767-x (2021)Data availability: Summary statistics generated by the COVID-19 HGI are available online, including per-ancestry summary statistics for African, admixed American, East Asian, European and South Asian ancestries (https://www.covid19hg.org/results/r7/). The analyses described here used the data release 7. If available, individual-level data can be requested directly from contributing studies, listed in Supplementary Table 1. We used publicly available data from GTEx (https://gtexportal.org/home/), the Neale laboratory (http://www.nealelab.is/uk-biobank/), the Finucane laboratory (https://www.finucanelab.org), the FinnGen Freeze 4 cohort (https://www.finngen.fi/en/access_results) and the eQTL catalogue release 3 (http://www.ebi.ac.uk/eqtl/).Code availability: The code for summary statistics lift-over, the projection PCA pipeline including precomputed loadings and meta-analyses (https://github.com/covid19-hg/); for heritability estimation (https://github.com/AndrewsLabUCSF/COVID19_heritability); for Mendelian randomization and genetic correlation (https://github.com/marcoralab/MRcovid); and subtype analyses (https://github.com/mjpirinen/covid19-hgi_subtypes) are available at GitHub.Reporting summary: Further information on research design is available in the Nature Portfolio Reporting Summary linked to this article online at: https://www.nature.com/articles/s41586-023-06355-3#MOESM2 .Supplementary information is available online at: https://www.nature.com/articles/s41586-023-06355-3#Sec4 .Copyright © The Author(s) 2023. Investigating the role of host genetic factors in COVID-19 severity and susceptibility can inform our understanding of the underlying biological mechanisms that influence adverse outcomes and drug development1,2. Here we present a second updated genome-wide association study (GWAS) on COVID-19 severity and infection susceptibility to SARS-CoV-2 from the COVID-19 Host Genetic Initiative (data release 7). We performed a meta-analysis of up to 219,692 cases and over 3 million controls, identifying 51 distinct genome-wide significant loci—adding 28 loci from the previous data release2. The increased number of candidate genes at the identified loci helped to map three major biological pathways that are involved in susceptibility and severity: viral entry, airway defence in mucus and type I interferon
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Last time updated on 08/01/2024