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
2014
Predicting the Impact of Vaccination on the Transmission Dynamics of Typhoid in South Asia: A Mathematical Modeling Study
Pitzer VE, Bowles CC, Baker S, Kang G, Balaji V, Farrar JJ, Grenfell BT. Predicting the Impact of Vaccination on the Transmission Dynamics of Typhoid in South Asia: A Mathematical Modeling Study. PLOS Neglected Tropical Diseases 2014, 8: e2642. PMID: 24416466, PMCID: PMC3886927, DOI: 10.1371/journal.pntd.0002642.Peer-Reviewed Original ResearchConceptsChristian Medical College HospitalSubstantial indirect protectionMedical College HospitalCulture-confirmed casesImpact of vaccinationIncidence of typhoidTransmission dynamicsOne-time campaignChronic carriersCollege HospitalVaccination strategiesEndemic settingsTyphoid feverVaccinationTyphoid infectionTyphoid casesNatural historyIndirect protectionVi polysaccharideBasic reproductive numberTyphoidIncidenceTyphoid incidenceAge distributionReproductive number