A Mixed Effects Model for Overdispersed Count Data in Animal Breeding

Biometrics ◽  
1996 ◽  
Vol 52 (1) ◽  
pp. 265 ◽  
Author(s):  
Robert J. Tempelman ◽  
Daniel Gianola
2021 ◽  
Vol 8 (3) ◽  
pp. 379-396
Author(s):  
Mariana Rodrigues-Motta ◽  
Daniel Gianola ◽  
Bjørg Heringstad

2018 ◽  
Vol 1 (2) ◽  
pp. 55-70 ◽  
Author(s):  
Morshed Alam ◽  
Naim Al Mahi ◽  
Munni Begum

One of the main objectives of many biological studies is to explore differential gene expression profiles between samples. Genes are referred to as differentially expressed (DE) if the read counts change across treatments or conditions systematically. Poisson and negative binomial (NB) regressions are widely used methods for non-over-dispersed (NOD) and over-dispersed (OD) count data respectively. However, in the presence of excessive number of zeros, these methods need adjustments. In this paper, we consider a zero-inflated Poisson mixed effects model (ZIPMM) and zero-inflated negative binomial mixed effects model (ZINBMM) to address excessive zero counts in the NOD and OD RNA-seq data respectively in the presence of random effects. We apply these methods to both simulated and real RNA-seq datasets. The ZIPMM and ZINBMM perform better on both simulated and real datasets.


2018 ◽  
Vol 51 (6) ◽  
pp. 2477-2497 ◽  
Author(s):  
Lies Declercq ◽  
Laleh Jamshidi ◽  
Belén Fernández-Castilla ◽  
S. Natasha Beretvas ◽  
Mariola Moeyaert ◽  
...  

2020 ◽  
Vol 39 (15) ◽  
pp. 2051-2066 ◽  
Author(s):  
Rui Wang ◽  
Ante Bing ◽  
Cathy Wang ◽  
Yuchen Hu ◽  
Ronald J. Bosch ◽  
...  

2020 ◽  
Vol 6 (1) ◽  
pp. 132-153
Author(s):  
Brandon M. A. Rogers

AbstractThe current study examines /s/ variation in the southern-central city of Concepción, Chile and its relation to a variety of linguistic and social factors. A proportional-odds mixed effects model, with the random factor of “speaker”, was used to treat the categorically coded data on a continuum of acoustical variation ([s] > [h] > ∅). The results presented show that contrary to the previous assertions, heavy sibilant reduction, especially elision, in Concepción, Chile is the rule, rather than the exception, to the extent that it is no longer a marker of certain social demographics as has been reported previously. Furthermore, based on the trends reported, it is likely that this has been the case for several decades. Finally, the overall observed trends are indicative that the rates of /s/ elision will continue to increase across social demographics and different phonetic and phonological contexts in Concepción, Chile.


Author(s):  
Avinash Chandran ◽  
Derek W. Brown ◽  
Gabriel H. Zieff ◽  
Zachary Y. Kerr ◽  
Daniel Credeur ◽  
...  

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