2023
Network embedding unveils the hidden interactions in the mammalian virome
Poisot T, Ouellet M, Mollentze N, Farrell M, Becker D, Brierley L, Albery G, Gibb R, Seifert S, Carlson C. Network embedding unveils the hidden interactions in the mammalian virome. Patterns 2023, 4: 100738. PMID: 37409053, PMCID: PMC10318366, DOI: 10.1016/j.patter.2023.100738.Peer-Reviewed Original ResearchMammalian viromeViral genomic featuresHost-virus interactionsGraph embeddingGenomic featuresNetwork science problemUnder-characterizedFundamental biologyHuman infectionsViromeRecommender systemsDiscovery effortsAmazon basinDisease emergenceHidden interactionsImputation algorithmData biasNetworkLinear filterScience problems
2022
Mammal virus diversity estimates are unstable due to accelerating discovery effort
Gibb R, Albery G, Mollentze N, Eskew E, Brierley L, Ryan S, Seifert S, Carlson C. Mammal virus diversity estimates are unstable due to accelerating discovery effort. Biology Letters 2022, 18: 20210427. PMID: 34982955, PMCID: PMC8727147, DOI: 10.1098/rsbl.2021.0427.Peer-Reviewed Original ResearchConceptsViral richnessHost speciesReliability of ecological inferenceGeographic sampling biasEvidence of declineViral diversityHost-virus associationsRearrangement of speciesSampling effortVirus discovery ratesEcological inferenceDiscovery effortsMammal hostsWild mammalsDiversity estimatesSampled hostsVirus diversityShort-term changesRichnessSampling biasSpeciesAssociation dataDiscovery rateDiversityCompare inferences