Search · four archives
Search · four archives
11 papers · ranked by Valyu relevance
Serge Sverdlov, Elizabeth A. Thompson
Nonlinearity in the genotype-phenotype relationship can take the form of dominance, epistasis, or gene-environment interaction. The importance of nonlinearity, especially epistasis, in real complex traits is controversial. Network models in systems biology are typically highly nonlinear, yet the predictive power of…
Il-Youp Kwak, Candace R. Moore, Edgar P. Spalding, Karl W. Broman
We previously proposed a simple regression-based method to map quantitative trait loci underlying function-valued phenotypes. In order to better handle the case of noisy phenotype measurements and accommodate the correlation structure among time points, we propose an alternative approach that maintains much of the…
Hongchang Dong, Yilei Ma, Chaoyi Chen, Jialing Li + 6 more
Promyelocytic leukemia nuclear bodies (PML NBs) are membraneless organelles (0.1-1 μm) integral to numerous fundamental cellular processes. Recent advances in cryo-EM and liquid-liquid phase separation (LLPS) research substantially advanced our understanding of PML NBs biophysical features and structural organization.…
Torsti Schulz, Marjo Saastamoinen, Jarno Vanhatalo
Variance partitioning is a common tool for statistical analysis and interpretation in both observational and experimental studies in ecology. Its popularity has led to a proliferation of methods with sometimes confusing or contradicting interpretations. Here, we present variance partitioning as a general tool in a…
Carlos P. Carmona, Nicola Pavanetto, Giacomo Puglielli
Functional trait space analyses are pivotal to define species’ ecological strategies across the tree of life. Yet, there is no single application that streamlines the many sometimes-troublesome steps needed to build and analyze functional trait spaces. To fill this gap, we propose funspace, an R package to easily…
Willem Kruijer, Pariya Behrouzi, Daniela Bustos-Korts, María Xosé Rodríguez-Álvarez + 4 more
Genetic variance of a phenotypic trait can originate from direct genetic effects, or from indirect effects, i.e. through genetic effects on other traits, affecting the trait of interest. This distinction is often of great importance, for example when trying to improve crop yield and simultaneously controlling plant…
José M. Cerda-Paredes, Javier Pacheco-Labrador, Dylan Craven, Javier Lopatin
Understanding plant functional diversity across scales requires integrating field-based ecology and remote sensing, yet these disciplines differ in how traits are studied. We evaluated the conceptual and methodological convergence between these disciplines. Our results reveal that field-based ecology has undergone…
Sarang Saini, Rishikesh Narayanan
The Marr-Albus theory postulates that pattern separation is realized by divergent feedforward excitatory connectivity. Yet, there are several lines of evidence for strong but differential regulation of pattern separation by local circuit connectivity, even when feedforward connectivity is divergent. What are the…
Eric Schulz, Joshua B. Tenenbaum, David Duvenaud, Maarten Speekenbrink + 1 more
How do people recognize and learn about complex functional structure? Taking inspiration from other areas of cognitive science, we propose that this is achieved by harnessing compositionality: complex structure is decomposed into simpler building blocks. We formalize this idea within the framework of Bayesian…
Christof Seiler, Susan Holmes
Functional brain connectivity is the co-occurrence of brain activity in different areas during resting and while doing tasks. The data of interest are multivariate timeseries measured simultaneously across brain parcels using resting-state fMRI (rfMRI). We analyze functional connectivity using two heteroscedasticity…
Nating Wang, Tinyi Chu, Jiangtao Luo, Rongling Wu + 1 more
QTL mapping is a powerful tool to infer the complexity of the genetic architecture underlying phenotypic traits, and has been extended to include longitudinal traits measured at multiple temporal/spatial points. Here, we introduce the R package Funmap2 based on the functional mapping framework, which integrates…