FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W4309987699> ?p ?o ?g. }

• W4309987699 abstract "Abstract A terrace in a phylogenetic tree space is a region where all trees contain the same set of subtrees, due to certain patterns of missing data among the taxa sampled, resulting in an identical optimality score for a given data set. This was first investigated in the context of phylogenetic tree estimation from sequence alignments using maximum likelihood (ML) and maximum parsimony (MP). The concept of terraces was later extended to the species tree inference problem from a collection of gene trees, where a set of equally optimal species trees was referred to as a “pseudo” species tree terrace. Pseudo terraces do not consider the topological proximity of the trees in terms of the induced subtrees resulting from certain patterns of missing data. In this study, we mathematically characterize species tree terraces and investigate the mathematical properties and conditions that lead multiple species trees to induce/display an identical set of locus-specific subtrees owing to missing data. We report that species tree terraces are agnostic to gene tree topologies and the discordance therein. Therefore, we introduce and characterize a special type of gene tree topology-aware terrace which we call “peak terrace”, and investigate conditions on the patterns of missing data that give rise to peak terraces. In addition to the theoretical and analytical results, we empirically investigated different challenges as well as various opportunities pertaining to the multiplicity of equally good species trees in terraced landscapes. Based on an extensive experimental study involving both simulated and real biological datasets, we present the prevalence of species tree terraces and the resulting ambiguity created for tree search algorithms. Remarkably, our findings indicate that the identification of terraces and the trees within them can substantially enhance the accuracy of summary methods. Furthermore, we demonstrate that reasonably accurate branch support can be computed by leveraging trees sourced from these terraces." @default.
• W4309987699 created "2022-11-30" @default.
• W4309987699 creator A5063693993 @default.
• W4309987699 creator A5080064706 @default.
• W4309987699 creator A5086748259 @default.
• W4309987699 date "2022-11-24" @default.
• W4309987699 modified "2023-09-27" @default.
• W4309987699 title "Terraces in Species Tree Inference from Gene Trees" @default.
• W4309987699 cites W1844951369 @default.
• W4309987699 cites W1983753237 @default.
• W4309987699 cites W2011114339 @default.
• W4309987699 cites W2013277649 @default.
• W4309987699 cites W2042696830 @default.
• W4309987699 cites W2052432722 @default.
• W4309987699 cites W2060425093 @default.
• W4309987699 cites W2078109763 @default.
• W4309987699 cites W2095523744 @default.
• W4309987699 cites W2102840198 @default.
• W4309987699 cites W2106704226 @default.
• W4309987699 cites W2107608009 @default.
• W4309987699 cites W2108039804 @default.
• W4309987699 cites W2110263284 @default.
• W4309987699 cites W2111647009 @default.
• W4309987699 cites W2114227052 @default.
• W4309987699 cites W2114430361 @default.
• W4309987699 cites W2119837484 @default.
• W4309987699 cites W2120663060 @default.
• W4309987699 cites W2125024684 @default.
• W4309987699 cites W2127713506 @default.
• W4309987699 cites W2139050004 @default.
• W4309987699 cites W2139478957 @default.
• W4309987699 cites W2145562754 @default.
• W4309987699 cites W2145608399 @default.
• W4309987699 cites W2146604274 @default.
• W4309987699 cites W2151320514 @default.
• W4309987699 cites W2162336040 @default.
• W4309987699 cites W2277574918 @default.
• W4309987699 cites W2344940607 @default.
• W4309987699 cites W2460352850 @default.
• W4309987699 cites W2787155168 @default.
• W4309987699 cites W2796222426 @default.
• W4309987699 cites W2801361050 @default.
• W4309987699 cites W2950001245 @default.
• W4309987699 cites W2950009653 @default.
• W4309987699 cites W3004295003 @default.
• W4309987699 cites W3016533833 @default.
• W4309987699 cites W3156757954 @default.
• W4309987699 cites W3164715403 @default.
• W4309987699 cites W4313236308 @default.
• W4309987699 doi "https://doi.org/10.1101/2022.11.21.517454" @default.
• W4309987699 hasPublicationYear "2022" @default.
• W4309987699 type Work @default.
• W4309987699 citedByCount "1" @default.
• W4309987699 countsByYear W43099876992023 @default.
• W4309987699 crossrefType "posted-content" @default.
• W4309987699 hasAuthorship W4309987699A5063693993 @default.
• W4309987699 hasAuthorship W4309987699A5080064706 @default.
• W4309987699 hasAuthorship W4309987699A5086748259 @default.
• W4309987699 hasBestOaLocation W43099876991 @default.
• W4309987699 hasConcept C104317684 @default.
• W4309987699 hasConcept C105795698 @default.
• W4309987699 hasConcept C113174947 @default.
• W4309987699 hasConcept C114614502 @default.
• W4309987699 hasConcept C154945302 @default.
• W4309987699 hasConcept C166957645 @default.
• W4309987699 hasConcept C177264268 @default.
• W4309987699 hasConcept C193252679 @default.
• W4309987699 hasConcept C199360897 @default.
• W4309987699 hasConcept C205649164 @default.
• W4309987699 hasConcept C22799545 @default.
• W4309987699 hasConcept C26619641 @default.
• W4309987699 hasConcept C2776214188 @default.
• W4309987699 hasConcept C2776638177 @default.
• W4309987699 hasConcept C33923547 @default.
• W4309987699 hasConcept C41008148 @default.
• W4309987699 hasConcept C44465124 @default.
• W4309987699 hasConcept C53208351 @default.
• W4309987699 hasConcept C55493867 @default.
• W4309987699 hasConcept C86803240 @default.
• W4309987699 hasConcept C9357733 @default.
• W4309987699 hasConceptScore W4309987699C104317684 @default.
• W4309987699 hasConceptScore W4309987699C105795698 @default.
• W4309987699 hasConceptScore W4309987699C113174947 @default.
• W4309987699 hasConceptScore W4309987699C114614502 @default.
• W4309987699 hasConceptScore W4309987699C154945302 @default.
• W4309987699 hasConceptScore W4309987699C166957645 @default.
• W4309987699 hasConceptScore W4309987699C177264268 @default.
• W4309987699 hasConceptScore W4309987699C193252679 @default.
• W4309987699 hasConceptScore W4309987699C199360897 @default.
• W4309987699 hasConceptScore W4309987699C205649164 @default.
• W4309987699 hasConceptScore W4309987699C22799545 @default.
• W4309987699 hasConceptScore W4309987699C26619641 @default.
• W4309987699 hasConceptScore W4309987699C2776214188 @default.
• W4309987699 hasConceptScore W4309987699C2776638177 @default.
• W4309987699 hasConceptScore W4309987699C33923547 @default.
• W4309987699 hasConceptScore W4309987699C41008148 @default.
• W4309987699 hasConceptScore W4309987699C44465124 @default.
• W4309987699 hasConceptScore W4309987699C53208351 @default.
• W4309987699 hasConceptScore W4309987699C55493867 @default.
• W4309987699 hasConceptScore W4309987699C86803240 @default.

• next