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Modeling nematode population dynamics using a multivariate poisson model with spike and slab variable selection
Model-based learning of organism dynamics is challenging, particularly when modeling count correlated data. In this paper, we adapt the multivariate Poisson distribution to model nematode dynamics. This distribution relaxes the mean-equal-variance property of the univariate Poisson distribution and...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Taylor & Francis
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9415552/ https://www.ncbi.nlm.nih.gov/pubmed/36035606 http://dx.doi.org/10.1080/02664763.2021.1935800 |
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author | Giese, Gill Saldaña Zepeda, Dayna P. Beacham, Jacquelin Velasco Cruz, Ciro |
author_facet | Giese, Gill Saldaña Zepeda, Dayna P. Beacham, Jacquelin Velasco Cruz, Ciro |
author_sort | Giese, Gill |
collection | PubMed |
description | Model-based learning of organism dynamics is challenging, particularly when modeling count correlated data. In this paper, we adapt the multivariate Poisson distribution to model nematode dynamics. This distribution relaxes the mean-equal-variance property of the univariate Poisson distribution and allows recovery of the correlation among nematode genera. An observational dataset with 68 soil samples, 11 nematode genera, and 12 soil parameters is analyzed. The Spike and Slab Variable Selection procedure is adapted to obtain parsimonious models for the nematode occurrence. Nematode genus to genus interaction is assessed through the correlation matrix of the model. A simulation study validated the model's implementation. As a result, the model determined the most important covariates for each nematode and classified pairs of nematodes as: sympathetic, antagonistic or neutral, based on their estimated correlations. The model is useful for researchers and practitioners interested in studying population dynamics. In particular, the current results are important inputs when planning strategies for improving or managing soil health regarding nematodes. |
format | Online Article Text |
id | pubmed-9415552 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Taylor & Francis |
record_format | MEDLINE/PubMed |
spelling | pubmed-94155522022-08-27 Modeling nematode population dynamics using a multivariate poisson model with spike and slab variable selection Giese, Gill Saldaña Zepeda, Dayna P. Beacham, Jacquelin Velasco Cruz, Ciro J Appl Stat Application Notes Model-based learning of organism dynamics is challenging, particularly when modeling count correlated data. In this paper, we adapt the multivariate Poisson distribution to model nematode dynamics. This distribution relaxes the mean-equal-variance property of the univariate Poisson distribution and allows recovery of the correlation among nematode genera. An observational dataset with 68 soil samples, 11 nematode genera, and 12 soil parameters is analyzed. The Spike and Slab Variable Selection procedure is adapted to obtain parsimonious models for the nematode occurrence. Nematode genus to genus interaction is assessed through the correlation matrix of the model. A simulation study validated the model's implementation. As a result, the model determined the most important covariates for each nematode and classified pairs of nematodes as: sympathetic, antagonistic or neutral, based on their estimated correlations. The model is useful for researchers and practitioners interested in studying population dynamics. In particular, the current results are important inputs when planning strategies for improving or managing soil health regarding nematodes. Taylor & Francis 2021-06-03 /pmc/articles/PMC9415552/ /pubmed/36035606 http://dx.doi.org/10.1080/02664763.2021.1935800 Text en © 2021 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group https://creativecommons.org/licenses/by-nc-nd/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivatives License (http://creativecommons.org/licenses/by-nc-nd/4.0/ (https://creativecommons.org/licenses/by-nc-nd/4.0/) ), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited, and is not altered, transformed, or built upon in any way. |
spellingShingle | Application Notes Giese, Gill Saldaña Zepeda, Dayna P. Beacham, Jacquelin Velasco Cruz, Ciro Modeling nematode population dynamics using a multivariate poisson model with spike and slab variable selection |
title | Modeling nematode population dynamics using a multivariate poisson model with spike and slab variable selection |
title_full | Modeling nematode population dynamics using a multivariate poisson model with spike and slab variable selection |
title_fullStr | Modeling nematode population dynamics using a multivariate poisson model with spike and slab variable selection |
title_full_unstemmed | Modeling nematode population dynamics using a multivariate poisson model with spike and slab variable selection |
title_short | Modeling nematode population dynamics using a multivariate poisson model with spike and slab variable selection |
title_sort | modeling nematode population dynamics using a multivariate poisson model with spike and slab variable selection |
topic | Application Notes |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9415552/ https://www.ncbi.nlm.nih.gov/pubmed/36035606 http://dx.doi.org/10.1080/02664763.2021.1935800 |
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