2025
Early Release - Large-Scale Genomic Analysis of SARS-CoV-2 Omicron BA.5 Emergence, United States - Volume 31, Supplement—May 2025 - Emerging Infectious Diseases journal - CDC
Pham K, Chaguza C, Lopes R, Cohen T, Taylor-Salmon E, Wilkinson M, Katebi V, Grubaugh N, Hill V. Early Release - Large-Scale Genomic Analysis of SARS-CoV-2 Omicron BA.5 Emergence, United States - Volume 31, Supplement—May 2025 - Emerging Infectious Diseases journal - CDC. Emerging Infectious Diseases 2025, 31: s45-s56. PMID: 40359081, PMCID: PMC12078544, DOI: 10.3201/eid3113.240981.Peer-Reviewed Original Research
2024
Genome-wide association study between SARS-CoV-2 single nucleotide polymorphisms and virus copies during infections
Li K, Chaguza C, Stamp J, Chew Y, Chen N, Ferguson D, Pandya S, Kerantzas N, Schulz W, Initiative Y, Hahn A, Ogbunugafor C, Pitzer V, Crawford L, Weinberger D, Grubaugh N. Genome-wide association study between SARS-CoV-2 single nucleotide polymorphisms and virus copies during infections. PLOS Computational Biology 2024, 20: e1012469. PMID: 39288189, PMCID: PMC11432881, DOI: 10.1371/journal.pcbi.1012469.Peer-Reviewed Original ResearchConceptsGenome-wide association studiesSingle-nucleotide polymorphismsAssociation studiesWhole-genome sequencingAmino acid changesSingle nucleotide polymorphismsPairs of substitutionsViral copiesEpistasis testsGenome sequenceGenetic variationSpike geneAcid changesViral genomeNucleotide polymorphismsSARS-CoV-2Detect interactionsHost factorsVirus copiesCopyInfection dynamicsRT-qPCRPolymorphismOmicron BASARS-CoV-2 infection
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