Matches in SemOpenAlex for { <https://semopenalex.org/work/W3199286150> ?p ?o ?g. }
- W3199286150 endingPage "e1008913" @default.
- W3199286150 startingPage "e1008913" @default.
- W3199286150 abstract "Many methods have been developed for statistical analysis of microbial community profiles, but due to the complex nature of typical microbiome measurements (e.g. sparsity, zero-inflation, non-independence, and compositionality) and of the associated underlying biology, it is difficult to compare or evaluate such methods within a single systematic framework. To address this challenge, we developed SparseDOSSA (Sparse Data Observations for the Simulation of Synthetic Abundances): a statistical model of microbial ecological population structure, which can be used to parameterize real-world microbial community profiles and to simulate new, realistic profiles of known structure for methods evaluation. Specifically, SparseDOSSA's model captures marginal microbial feature abundances as a zero-inflated log-normal distribution, with additional model components for absolute cell counts and the sequence read generation process, microbe-microbe, and microbe-environment interactions. Together, these allow fully known covariance structure between synthetic features (i.e. taxa) or between features and phenotypes to be simulated for method benchmarking. Here, we demonstrate SparseDOSSA's performance for 1) accurately modeling human-associated microbial population profiles; 2) generating synthetic communities with controlled population and ecological structures; 3) spiking-in true positive synthetic associations to benchmark analysis methods; and 4) recapitulating an end-to-end mouse microbiome feeding experiment. Together, these represent the most common analysis types in assessment of real microbial community environmental and epidemiological statistics, thus demonstrating SparseDOSSA's utility as a general-purpose aid for modeling communities and evaluating quantitative methods. An open-source implementation is available at http://huttenhower.sph.harvard.edu/sparsedossa2." @default.
- W3199286150 created "2021-09-27" @default.
- W3199286150 creator A5008740510 @default.
- W3199286150 creator A5008844345 @default.
- W3199286150 creator A5035299774 @default.
- W3199286150 creator A5036861355 @default.
- W3199286150 creator A5049288816 @default.
- W3199286150 creator A5049679555 @default.
- W3199286150 creator A5053860485 @default.
- W3199286150 creator A5060531981 @default.
- W3199286150 creator A5066321584 @default.
- W3199286150 creator A5068121952 @default.
- W3199286150 creator A5072748392 @default.
- W3199286150 creator A5088616755 @default.
- W3199286150 date "2021-09-13" @default.
- W3199286150 modified "2023-10-10" @default.
- W3199286150 title "A statistical model for describing and simulating microbial community profiles" @default.
- W3199286150 cites W1516274582 @default.
- W3199286150 cites W1864161604 @default.
- W3199286150 cites W1877206895 @default.
- W3199286150 cites W2004014148 @default.
- W3199286150 cites W2013371150 @default.
- W3199286150 cites W2026006003 @default.
- W3199286150 cites W2056279562 @default.
- W3199286150 cites W2071841602 @default.
- W3199286150 cites W2113977541 @default.
- W3199286150 cites W2118629634 @default.
- W3199286150 cites W2132555912 @default.
- W3199286150 cites W2137526110 @default.
- W3199286150 cites W2143777796 @default.
- W3199286150 cites W2148167644 @default.
- W3199286150 cites W2157539385 @default.
- W3199286150 cites W2170152604 @default.
- W3199286150 cites W2170989872 @default.
- W3199286150 cites W2188930066 @default.
- W3199286150 cites W2280650020 @default.
- W3199286150 cites W2403573949 @default.
- W3199286150 cites W2498119267 @default.
- W3199286150 cites W2511058008 @default.
- W3199286150 cites W2553548418 @default.
- W3199286150 cites W2613395251 @default.
- W3199286150 cites W2756958651 @default.
- W3199286150 cites W2762425175 @default.
- W3199286150 cites W2768511889 @default.
- W3199286150 cites W2769542288 @default.
- W3199286150 cites W2770042745 @default.
- W3199286150 cites W2770269406 @default.
- W3199286150 cites W2897534840 @default.
- W3199286150 cites W2899961539 @default.
- W3199286150 cites W2927453907 @default.
- W3199286150 cites W2947189704 @default.
- W3199286150 cites W2963727293 @default.
- W3199286150 cites W2963770509 @default.
- W3199286150 cites W2975487066 @default.
- W3199286150 cites W2980278484 @default.
- W3199286150 cites W2991423641 @default.
- W3199286150 cites W3043062835 @default.
- W3199286150 cites W3098806227 @default.
- W3199286150 cites W3100838142 @default.
- W3199286150 cites W3169518631 @default.
- W3199286150 cites W4294107304 @default.
- W3199286150 doi "https://doi.org/10.1371/journal.pcbi.1008913" @default.
- W3199286150 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/8491899" @default.
- W3199286150 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/34516542" @default.
- W3199286150 hasPublicationYear "2021" @default.
- W3199286150 type Work @default.
- W3199286150 sameAs 3199286150 @default.
- W3199286150 citedByCount "19" @default.
- W3199286150 countsByYear W31992861502021 @default.
- W3199286150 countsByYear W31992861502022 @default.
- W3199286150 countsByYear W31992861502023 @default.
- W3199286150 crossrefType "journal-article" @default.
- W3199286150 hasAuthorship W3199286150A5008740510 @default.
- W3199286150 hasAuthorship W3199286150A5008844345 @default.
- W3199286150 hasAuthorship W3199286150A5035299774 @default.
- W3199286150 hasAuthorship W3199286150A5036861355 @default.
- W3199286150 hasAuthorship W3199286150A5049288816 @default.
- W3199286150 hasAuthorship W3199286150A5049679555 @default.
- W3199286150 hasAuthorship W3199286150A5053860485 @default.
- W3199286150 hasAuthorship W3199286150A5060531981 @default.
- W3199286150 hasAuthorship W3199286150A5066321584 @default.
- W3199286150 hasAuthorship W3199286150A5068121952 @default.
- W3199286150 hasAuthorship W3199286150A5072748392 @default.
- W3199286150 hasAuthorship W3199286150A5088616755 @default.
- W3199286150 hasBestOaLocation W31992861501 @default.
- W3199286150 hasConcept C104317684 @default.
- W3199286150 hasConcept C105795698 @default.
- W3199286150 hasConcept C114289077 @default.
- W3199286150 hasConcept C119857082 @default.
- W3199286150 hasConcept C124101348 @default.
- W3199286150 hasConcept C13280743 @default.
- W3199286150 hasConcept C133079900 @default.
- W3199286150 hasConcept C143121216 @default.
- W3199286150 hasConcept C144024400 @default.
- W3199286150 hasConcept C144133560 @default.
- W3199286150 hasConcept C149923435 @default.
- W3199286150 hasConcept C15151743 @default.
- W3199286150 hasConcept C154945302 @default.