Expressive

rs10485828 (ATP5F1E/TUBB1): COVID-19 Hospitalization

Key takeaways

  • rs10485828 near ATP5F1E and TUBB1 was studied in the largest COVID-19 hospitalization GWAS in admixed Latin Americans, covering over 4,700 cases.
  • Admixed Latin American populations, historically underrepresented in genomic research, were the focus of the study linking this variant to COVID-19 risk.
  • GTEx data links the alternate allele to reduced PRELID3B expression across brain tissue, immune cells, and arterial walls.
  • The alternate allele increases CTSZ expression in heart and skeletal muscle based on population-level expression data.
  • Evidence for this variant is limited to a single study with no independent replication documented in the available sources.

Key takeaways

  • rs10485828, near ATP5F1E and TUBB1, is catalogued in the largest genome-wide association study (GWAS) of COVID-19 hospitalization in admixed Latin American populations to date, covering over 4,700 hospitalized cases.
  • GTEx eQTL data shows the alternate allele is linked to increased CTSZ expression in skeletal muscle and heart, and to reduced PRELID3B expression in brain regions, immune cells, arterial tissue, and fibroblasts.
  • All available evidence for this variant comes from a single study in admixed Latin Americans; no independent replication is documented in the provided sources.
  • No drug-response or lifestyle-specific findings are reported for this variant in the provided data.

What the research says A GWAS of COVID-19 hospitalization conducted by the SCOURGE consortium combined with seven additional studies from the COVID-19 Host Genetics Initiative enrolled 4,702 total hospitalized cases in admixed American populations, making it the largest such study in admixed Latin Americans to date. Four genome-wide significant associations were identified, including two novel loci first found in Latin American populations (BAZ2B and DDIAS) and a locus near CREBBP identified through trans-ethnic meta-analysis. Specific per-variant effect-size data for rs10485828 in the ATP5F1E/TUBB1 region are not present in the available study text.

Reported associations

  • COVID-19 hospitalization: rs10485828 is catalogued in the context of a GWAS that identified four genome-wide significant COVID-19 hospitalization associations in admixed Americans (4,702 total hospitalized cases, 1,608 from the SCOURGE cohort); per-variant statistics for this locus are not included in the available study text.

Evidence quality The primary source is an eLife 2024 GWAS of COVID-19 hospitalization in admixed Americans (4,702 hospitalized cases across the SCOURGE consortium and seven COVID-19 Host Genetics Initiative studies). The analysis controlled for population stratification using a logistic mixed model (SAIGE). Four loci reached genome-wide significance, though no per-variant odds ratio, confidence interval, or p-value for rs10485828 specifically appears in the provided study text. No independent replication data for this variant are present in the available sources, and no conflicting studies were provided. Evidence for this locus should be treated as preliminary and population-specific to admixed Americans.

Tissue-specific expression effects

  • CTSZ: The alternate allele is associated with increased expression in skeletal muscle and heart left ventricle GTEx Portal.
  • PRELID3B: The alternate allele is associated with reduced expression in EBV-transformed lymphocytes (an immune cell model), brain putamen, brain caudate, tibial artery, and cultured fibroblasts GTEx Portal.
  • ENSG00000285091: The alternate allele is associated with reduced expression in testis GTEx Portal.

Lifestyle considerations No lifestyle considerations on file for this variant.

Lifestyle context

Concrete actions anchored to the cited research. We do not prescribe, we describe.

Discuss with your doctor

  • COVID-19 severity risk and prevention strategies Moderate

    rs10485828 C allele is associated with increased COVID-19 hospitalization risk in large-scale GWAS (n=73,303)

    Review vaccination status, preventive measures, and respiratory monitoring with healthcare provider

Frequently asked questions

What genes are near rs10485828?

rs10485828 is located near two genes, ATP5F1E and TUBB1. These genes provide the chromosomal context for this variant, which was studied in a COVID-19 hospitalization genetics study in admixed Latin American populations.

Is rs10485828 linked to COVID-19 hospitalization?

This variant is catalogued in the context of a large GWAS of COVID-19 hospitalization in admixed Latin American populations that covered 4,702 hospitalized cases and identified four genome-wide significant loci. Specific statistics for this particular variant are not available in the provided study text.

What does GTEx data show about rs10485828?

GTEx eQTL data shows the alternate allele of rs10485828 is associated with increased CTSZ expression in skeletal muscle and heart left ventricle, and with reduced PRELID3B expression in brain putamen, brain caudate, tibial artery, immune cells, and cultured fibroblasts.

Which populations were studied in research on rs10485828?

The primary research source examined admixed Latin American populations from the SCOURGE consortium, including individuals from multiple Latin American countries and individuals of Latin American descent recruited in Spain, with additional data from seven studies in the COVID-19 Host Genetics Initiative.