Missing heritability and strategies for finding the underlying causes of complex disease

EE Eichler, J Flint, G Gibson, A Kong, SM Leal… - Nature reviews …, 2010 - nature.com
Although recent genome-wide studies have provided valuable insights into the genetic basis
of human disease, they have explained relatively little of the heritability of most complex …

Travelling the world of gene–gene interactions

K Van Steen - Briefings in bioinformatics, 2012 - academic.oup.com
Over the last few years, main effect genetic association analysis has proven to be a
successful tool to unravel genetic risk components to a variety of complex diseases. In the …

Negative epistasis between beneficial mutations in an evolving bacterial population

AI Khan, DM Dinh, D Schneider, RE Lenski, TF Cooper - Science, 2011 - science.org
Epistatic interactions between mutations play a prominent role in evolutionary theories.
Many studies have found that epistasis is widespread, but they have rarely considered …

Non-additive microbial community responses to environmental complexity

AR Pacheco, ML Osborne, D Segrè - Nature communications, 2021 - nature.com
Environmental composition is a major, though poorly understood, determinant of
microbiome dynamics. Here we ask whether general principles govern how microbial …

Resolving discrepancies between chimeric and multiplicative measures of higher-order epistasis

U Chitra, B Arnold, BJ Raphael - Nature Communications, 2025 - nature.com
Epistasis-the interaction between alleles at different genetic loci-plays a fundamental role in
biology. However, several recent approaches quantify epistasis using a chimeric formula …

Knowledge-driven analysis identifies a gene–gene interaction affecting high-density lipoprotein cholesterol levels in multi-ethnic populations

L Ma, A Brautbar, E Boerwinkle, CF Sing, AG Clark… - PLoS …, 2012 - journals.plos.org
Total cholesterol, low-density lipoprotein cholesterol, triglyceride, and high-density
lipoprotein cholesterol (HDL-C) levels are among the most important risk factors for coronary …

Pervasive antagonistic interactions among hybrid incompatibility loci

RF Guerrero, CD Muir, S Josway, LC Moyle - PLoS genetics, 2017 - journals.plos.org
Species barriers, expressed as hybrid inviability and sterility, are often due to epistatic
interactions between divergent loci from two lineages. Theoretical models indicate that the …

Bacterial responses to antibiotics and their combinations

K Mitosch, T Bollenbach - Environmental microbiology reports, 2014 - Wiley Online Library
Antibiotics affect bacterial cell physiology at many levels. Rather than just compensating for
the direct cellular defects caused by the drug, bacteria respond to antibiotics by changing …

Environment-dependent epistasis increases phenotypic diversity in gene regulatory networks

F Baier, F Gauye, R Perez-Carrasco, JL Payne… - Science …, 2023 - science.org
Mutations to gene regulatory networks can be maladaptive or a source of evolutionary
novelty. Epistasis confounds our understanding of how mutations affect the expression …

On the incongruence of genotype-phenotype and fitness landscapes

M Srivastava, JL Payne - PLoS Computational Biology, 2022 - journals.plos.org
The map** from genotype to phenotype to fitness typically involves multiple nonlinearities
that can transform the effects of mutations. For example, mutations may contribute additively …