Global genetic networks and the genotype-to-phenotype relationship
Genetic interactions identify combinations of genetic variants that impinge on phenotype.
With whole-genome sequence information available for thousands of individuals within a …
With whole-genome sequence information available for thousands of individuals within a …
Adapting to stress—chaperome networks in cancer
In this Opinion article, we aim to address how cells adapt to stress and the repercussions
chronic stress has on cellular function. We consider acute and chronic stress-induced …
chronic stress has on cellular function. We consider acute and chronic stress-induced …
Advances in gap-filling genome-scale metabolic models and model-driven experiments lead to novel metabolic discoveries
S Pan, JL Reed - Current opinion in biotechnology, 2018 - Elsevier
Highlights•Gap-filling is an important tool for making model-driven metabolic
discoveries.•Recent gap-filling algorithms are more efficient and/or show superior …
discoveries.•Recent gap-filling algorithms are more efficient and/or show superior …
Modular epistasis and the compensatory evolution of gene deletion mutants
JI Rojas Echenique, S Kryazhimskiy… - PLoS …, 2019 - journals.plos.org
Screens for epistatic interactions have long been used to characterize functional
relationships corresponding to protein complexes, metabolic pathways, and other functional …
relationships corresponding to protein complexes, metabolic pathways, and other functional …
Genetic analysis of the Candida albicans biofilm transcription factor network using simple and complex haploinsufficiency
VE Glazier, T Murante, D Murante, K Koselny… - PLoS …, 2017 - journals.plos.org
Biofilm formation by Candida albicans is a key aspect of its pathobiology and is regulated by
an integrated network of transcription factors (Bcr1, Brg1, Efg1, Ndt80, Rob1, and Tec1). To …
an integrated network of transcription factors (Bcr1, Brg1, Efg1, Ndt80, Rob1, and Tec1). To …
Radiation impacts gene redundancy and biofilm regulation of cryoconite microbiomes in Northern Hemisphere glaciers
Z Zhang, Y Liu, W Zhao, M Ji - Microbiome, 2023 - Springer
Background Glaciers harbor diverse microorganisms adapted to extreme conditions with
high radiation, fluctuating temperature, and low nutrient availability. In glacial ecosystems …
high radiation, fluctuating temperature, and low nutrient availability. In glacial ecosystems …
Systems biology methods for Alzheimer's disease research toward molecular signatures, subtypes, and stages and precision medicine: application in cohort studies …
Alzheimer's disease (AD) is a complex multifactorial disease, involving a combination of
genomic, interactome, and environmental factors, with essential participation of (a) intrinsic …
genomic, interactome, and environmental factors, with essential participation of (a) intrinsic …
Mechanisms of suppression: The wiring of genetic resilience
Recent analysis of genome sequences has identified individuals that are healthy despite
carrying severe disease‐associated mutations. A possible explanation is that these …
carrying severe disease‐associated mutations. A possible explanation is that these …
Genetic network complexity shapes background-dependent phenotypic expression
The phenotypic consequences of a given mutation can vary across individuals. This so-
called background effect is widely observed, from mutant fitness of loss-of-function variants …
called background effect is widely observed, from mutant fitness of loss-of-function variants …
Yeast genetic interaction screens in the age of CRISPR/Cas
The ease of performing both forward and reverse genetics in Saccharomyces cerevisiae,
along with its stable haploid state and short generation times, has made this budding yeast …
along with its stable haploid state and short generation times, has made this budding yeast …