Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full dataset
<p>X-axis is the first principle coordinate which explains the largest amount of data change, Y-axis is the second principle coordinate which explains the second largest amount of data change. Distances on axes summarize variability and are relative to the samples plotted and colors indicate d...
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2025
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| _version_ | 1849927626349608960 |
|---|---|
| author | August Guang (9975678) |
| author2 | Casey W Dunn (21263816) Vlad Novitsky (3366560) Mark Howison (3315450) Rami Kantor (7863) |
| author2_role | author author author author |
| author_facet | August Guang (9975678) Casey W Dunn (21263816) Vlad Novitsky (3366560) Mark Howison (3315450) Rami Kantor (7863) |
| author_role | author |
| dc.creator.none.fl_str_mv | August Guang (9975678) Casey W Dunn (21263816) Vlad Novitsky (3366560) Mark Howison (3315450) Rami Kantor (7863) |
| dc.date.none.fl_str_mv | 2025-11-25T18:41:31Z |
| dc.identifier.none.fl_str_mv | 10.1371/journal.pcbi.1013676.g004 |
| dc.relation.none.fl_str_mv | https://figshare.com/articles/figure/Principle_Coordinates_Analysis_PCoA_projected_onto_2_dimensions_between_pol-wgs_mixtures_and_nFL_genome_full_dataset/30714952 |
| dc.rights.none.fl_str_mv | CC BY 4.0 info:eu-repo/semantics/openAccess |
| dc.subject.none.fl_str_mv | Genetics Molecular Biology Biotechnology Evolutionary Biology Cancer Statistics Infectious Diseases Virology Biological Sciences not elsewhere classified still broadly used mean cluster size compared tree similarity also decreased number shape alignment provides flexible approach called larger clusters identified partial pol sequences 1 near full improve phylogenetic inference long hiv sequences phylogenetic inference near full 1 sequences shape alignments pol regions new approach molecular clusters improve phylogenetic full dataset short sequences long sequences available sequences xlink "> transmission dynamics systematically masked subset dataset study subset straightforward method short hiv shaped alignments results suggest provide insights proportional increments missing characters immediately depending different lengths analysis goals |
| dc.title.none.fl_str_mv | Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full dataset |
| dc.type.none.fl_str_mv | Image Figure info:eu-repo/semantics/publishedVersion image |
| description | <p>X-axis is the first principle coordinate which explains the largest amount of data change, Y-axis is the second principle coordinate which explains the second largest amount of data change. Distances on axes summarize variability and are relative to the samples plotted and colors indicate different sequence mixtures according to the legend. Along the first (highest) variance dimension, different mixtures varied directly from pol to wgs, while along the second variance dimension, pol and wgs were closer to each other than to wgs30.</p> |
| eu_rights_str_mv | openAccess |
| id | Manara_56ce197a69a7b72b77b630f4210bf0e1 |
| identifier_str_mv | 10.1371/journal.pcbi.1013676.g004 |
| network_acronym_str | Manara |
| network_name_str | ManaraRepo |
| oai_identifier_str | oai:figshare.com:article/30714952 |
| publishDate | 2025 |
| repository.mail.fl_str_mv | |
| repository.name.fl_str_mv | |
| repository_id_str | |
| rights_invalid_str_mv | CC BY 4.0 |
| spelling | Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full datasetAugust Guang (9975678)Casey W Dunn (21263816)Vlad Novitsky (3366560)Mark Howison (3315450)Rami Kantor (7863)GeneticsMolecular BiologyBiotechnologyEvolutionary BiologyCancerStatisticsInfectious DiseasesVirologyBiological Sciences not elsewhere classifiedstill broadly usedmean cluster sizecompared tree similarityalso decreased numbershape alignment providesflexible approach calledlarger clusters identifiedpartial pol sequences1 near fullimprove phylogenetic inferencelong hiv sequencesphylogenetic inferencenear full1 sequencesshape alignmentspol regionsnew approachmolecular clustersimprove phylogeneticfull datasetshort sequenceslong sequencesavailable sequencesxlink ">transmission dynamicssystematically maskedsubset datasetstudy subsetstraightforward methodshort hivshaped alignmentsresults suggestprovide insightsproportional incrementsmissing charactersimmediately dependingdifferent lengthsanalysis goals<p>X-axis is the first principle coordinate which explains the largest amount of data change, Y-axis is the second principle coordinate which explains the second largest amount of data change. Distances on axes summarize variability and are relative to the samples plotted and colors indicate different sequence mixtures according to the legend. Along the first (highest) variance dimension, different mixtures varied directly from pol to wgs, while along the second variance dimension, pol and wgs were closer to each other than to wgs30.</p>2025-11-25T18:41:31ZImageFigureinfo:eu-repo/semantics/publishedVersionimage10.1371/journal.pcbi.1013676.g004https://figshare.com/articles/figure/Principle_Coordinates_Analysis_PCoA_projected_onto_2_dimensions_between_pol-wgs_mixtures_and_nFL_genome_full_dataset/30714952CC BY 4.0info:eu-repo/semantics/openAccessoai:figshare.com:article/307149522025-11-25T18:41:31Z |
| spellingShingle | Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full dataset August Guang (9975678) Genetics Molecular Biology Biotechnology Evolutionary Biology Cancer Statistics Infectious Diseases Virology Biological Sciences not elsewhere classified still broadly used mean cluster size compared tree similarity also decreased number shape alignment provides flexible approach called larger clusters identified partial pol sequences 1 near full improve phylogenetic inference long hiv sequences phylogenetic inference near full 1 sequences shape alignments pol regions new approach molecular clusters improve phylogenetic full dataset short sequences long sequences available sequences xlink "> transmission dynamics systematically masked subset dataset study subset straightforward method short hiv shaped alignments results suggest provide insights proportional increments missing characters immediately depending different lengths analysis goals |
| status_str | publishedVersion |
| title | Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full dataset |
| title_full | Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full dataset |
| title_fullStr | Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full dataset |
| title_full_unstemmed | Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full dataset |
| title_short | Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full dataset |
| title_sort | Principle Coordinates Analysis (PCoA) projected onto 2 dimensions between pol-wgs mixtures and nFL genome, full dataset |
| topic | Genetics Molecular Biology Biotechnology Evolutionary Biology Cancer Statistics Infectious Diseases Virology Biological Sciences not elsewhere classified still broadly used mean cluster size compared tree similarity also decreased number shape alignment provides flexible approach called larger clusters identified partial pol sequences 1 near full improve phylogenetic inference long hiv sequences phylogenetic inference near full 1 sequences shape alignments pol regions new approach molecular clusters improve phylogenetic full dataset short sequences long sequences available sequences xlink "> transmission dynamics systematically masked subset dataset study subset straightforward method short hiv shaped alignments results suggest provide insights proportional increments missing characters immediately depending different lengths analysis goals |