Highlights•Networks are useful tools to integrate, display and analyze large sets of
information from multiple sources.•Network analyses help us observe global patterns of …

Genetical genomics studies uncover genome‐wide genetic interactions between genes and
their transcriptional regulators. High‐throughput measurement of gene expression in …

Structural variants and presence/absence polymorphisms are common in plant genomes,
yet they are routinely overlooked in genome-wide association studies (GWAS). Here, we …

Classical evolutionary theory maintains that mutation rate variation between genes should
be random with respect to fitness–and evolutionary optimization of genic mutation rates …

The evolutionary dynamics of molecular populations are strongly dependent on the structure
of genotype spaces. The map between genotype and phenotype determines how easily …

Natural genetic variation makes it possible to discover evolutionary changes that have been
maintained in a population because they are advantageous. To understand genotype …

Understanding the genetic machinery of plant growth and development is of fundamental
importance in agriculture and biology. Recently, a novel statistical framework, coined …

Recent advances in genomics technologies have greatly accelerated the progress in both
fundamental plant science and applied breeding research. Concurrently, high‐throughput …

As the increasing number of genome-wide association studies (GWAS) reveals the
limitations of analyses linking single genetic markers with phenotypic variation for explaining …

Linear mixed models (LMMs) are a commonly used method for genome-wide association
studies (GWAS) that aim to detect associations between genetic markers and phenotypic …