Evolutionary pathways and trajectories in antibiotic resistance
Evolution is the hallmark of life. Descriptions of the evolution of microorganisms have
provided a wealth of information, but knowledge regarding “what happened” has precluded …
provided a wealth of information, but knowledge regarding “what happened” has precluded …
Environmental DNA time series in ecology
Ecological communities change in time and space, but long-term dynamics at the century-to-
millennia scale are poorly documented due to lack of relevant data sets. Nevertheless …
millennia scale are poorly documented due to lack of relevant data sets. Nevertheless …
Efficiently controlling for case-control imbalance and sample relatedness in large-scale genetic association studies
In genome-wide association studies (GWAS) for thousands of phenotypes in large biobanks,
most binary traits have substantially fewer cases than controls. Both of the widely used …
most binary traits have substantially fewer cases than controls. Both of the widely used …
rptR: Repeatability estimation and variance decomposition by generalized linear mixed‐effects models
MA Stoffel, S Nakagawa… - Methods in ecology and …, 2017 - Wiley Online Library
Intra‐class correlations (ICC) and repeatabilities (R) are fundamental statistics for
quantifying the reproducibility of measurements and for understanding the structure of …
quantifying the reproducibility of measurements and for understanding the structure of …
The coefficient of determination R2 and intra-class correlation coefficient from generalized linear mixed-effects models revisited and expanded
S Nakagawa, PCD Johnson… - Journal of the Royal …, 2017 - royalsocietypublishing.org
The coefficient of determination R 2 quantifies the proportion of variance explained by a
statistical model and is an important summary statistic of biological interest. However …
statistical model and is an important summary statistic of biological interest. However …
Symbioses shape feeding niches and diversification across insects
For over 300 million years, insects have relied on symbiotic microbes for nutrition and
defence. However, it is unclear whether specific ecological conditions have repeatedly …
defence. However, it is unclear whether specific ecological conditions have repeatedly …
Scalable generalized linear mixed model for region-based association tests in large biobanks and cohorts
With very large sample sizes, biobanks provide an exciting opportunity to identify genetic
components of complex traits. To analyze rare variants, region-based multiple-variant …
components of complex traits. To analyze rare variants, region-based multiple-variant …
Rs for Correlated Data: Phylogenetic Models, LMMs, and GLMMs
AR Ives - Systematic Biology, 2019 - academic.oup.com
Many researchers want to report an to measure the variance explained by a model. When
the model includes correlation among data, such as phylogenetic models and mixed …
the model includes correlation among data, such as phylogenetic models and mixed …
Sparse evidence for selection on phenotypic plasticity in response to temperature
PA Arnold, AB Nicotra… - … Transactions of the …, 2019 - royalsocietypublishing.org
Phenotypic plasticity is frequently assumed to be an adaptive mechanism by which
organisms cope with rapid changes in their environment, such as shifts in temperature …
organisms cope with rapid changes in their environment, such as shifts in temperature …
Genetic variance in fitness indicates rapid contemporary adaptive evolution in wild animals
The rate of adaptive evolution, the contribution of selection to genetic changes that increase
mean fitness, is determined by the additive genetic variance in individual relative fitness. To …
mean fitness, is determined by the additive genetic variance in individual relative fitness. To …