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A bivariate zero-inflated negative binomial model and its applications to biomedical settings

The zero-inflated negative binomial distribution has been widely used for count data analyses in various biomedical settings due to its capacity of modeling excess zeros and overdispersion. When there are correlated count variables, a bivariate model is essential for understanding their full distrib...

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Detalles Bibliográficos
Autores principales: Cho, Hunyong, Liu, Chuwen, Preisser, John S, Wu, Di
Formato: Online Artículo Texto
Lenguaje:English
Publicado: SAGE Publications 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10500952/
https://www.ncbi.nlm.nih.gov/pubmed/37167422
http://dx.doi.org/10.1177/09622802231172028
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author Cho, Hunyong
Liu, Chuwen
Preisser, John S
Wu, Di
author_facet Cho, Hunyong
Liu, Chuwen
Preisser, John S
Wu, Di
author_sort Cho, Hunyong
collection PubMed
description The zero-inflated negative binomial distribution has been widely used for count data analyses in various biomedical settings due to its capacity of modeling excess zeros and overdispersion. When there are correlated count variables, a bivariate model is essential for understanding their full distributional features. Examples include measuring correlation of two genes in sparse single-cell RNA sequencing data and modeling dental caries count indices on two different tooth surface types. For these purposes, we develop a richly parametrized bivariate zero-inflated negative binomial model that has a simple latent variable framework and eight free parameters with intuitive interpretations. In the scRNA-seq data example, the correlation is estimated after adjusting for the effects of dropout events represented by excess zeros. In the dental caries data, we analyze how the treatment with Xylitol lozenges affects the marginal mean and other patterns of response manifested in the two dental caries traits. An R package “bzinb” is available on Comprehensive R Archive Network.
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spelling pubmed-105009522023-09-15 A bivariate zero-inflated negative binomial model and its applications to biomedical settings Cho, Hunyong Liu, Chuwen Preisser, John S Wu, Di Stat Methods Med Res Original Research Articles The zero-inflated negative binomial distribution has been widely used for count data analyses in various biomedical settings due to its capacity of modeling excess zeros and overdispersion. When there are correlated count variables, a bivariate model is essential for understanding their full distributional features. Examples include measuring correlation of two genes in sparse single-cell RNA sequencing data and modeling dental caries count indices on two different tooth surface types. For these purposes, we develop a richly parametrized bivariate zero-inflated negative binomial model that has a simple latent variable framework and eight free parameters with intuitive interpretations. In the scRNA-seq data example, the correlation is estimated after adjusting for the effects of dropout events represented by excess zeros. In the dental caries data, we analyze how the treatment with Xylitol lozenges affects the marginal mean and other patterns of response manifested in the two dental caries traits. An R package “bzinb” is available on Comprehensive R Archive Network. SAGE Publications 2023-05-11 2023-07 /pmc/articles/PMC10500952/ /pubmed/37167422 http://dx.doi.org/10.1177/09622802231172028 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by-nc/4.0/This article is distributed under the terms of the Creative Commons Attribution-NonCommercial 4.0 License (https://creativecommons.org/licenses/by-nc/4.0/) which permits non-commercial use, reproduction and distribution of the work without further permission provided the original work is attributed as specified on the SAGE and Open Access page (https://us.sagepub.com/en-us/nam/open-access-at-sage).
spellingShingle Original Research Articles
Cho, Hunyong
Liu, Chuwen
Preisser, John S
Wu, Di
A bivariate zero-inflated negative binomial model and its applications to biomedical settings
title A bivariate zero-inflated negative binomial model and its applications to biomedical settings
title_full A bivariate zero-inflated negative binomial model and its applications to biomedical settings
title_fullStr A bivariate zero-inflated negative binomial model and its applications to biomedical settings
title_full_unstemmed A bivariate zero-inflated negative binomial model and its applications to biomedical settings
title_short A bivariate zero-inflated negative binomial model and its applications to biomedical settings
title_sort bivariate zero-inflated negative binomial model and its applications to biomedical settings
topic Original Research Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10500952/
https://www.ncbi.nlm.nih.gov/pubmed/37167422
http://dx.doi.org/10.1177/09622802231172028
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