The divergence of mutation rates and spectra across the Tree of Life
Owing to advances in genome sequencing, genome stability has become one of the most
scrutinized cellular traits across the Tree of Life. Despite its centrality to all things biological …
scrutinized cellular traits across the Tree of Life. Despite its centrality to all things biological …
Systems genetics approaches for understanding complex traits with relevance for human disease
Quantitative traits are often complex because of the contribution of many loci, with further
complexity added by environmental factors. In medical research, systems genetics is a …
complexity added by environmental factors. In medical research, systems genetics is a …
Merged magnetic resonance and light sheet microscopy of the whole mouse brain
We have developed workflows to align 3D magnetic resonance histology (MRH) of the
mouse brain with light sheet microscopy (LSM) and 3D delineations of the same specimen …
mouse brain with light sheet microscopy (LSM) and 3D delineations of the same specimen …
Evolution of the SARS-CoV-2 mutational spectrum
SARS-CoV-2 evolves rapidly in part because of its high mutation rate. Here, we examine
whether this mutational process itself has changed during viral evolution. To do this, we …
whether this mutational process itself has changed during viral evolution. To do this, we …
[HTML][HTML] Resolution of structural variation in diverse mouse genomes reveals chromatin remodeling due to transposable elements
Diverse inbred mouse strains are important biomedical research models, yet genome
characterization of many strains is fundamentally lacking in comparison with humans. In …
characterization of many strains is fundamentally lacking in comparison with humans. In …
geneHapR: an R package for gene haplotypic statistics and visualization
R Zhang, G Jia, X Diao - BMC bioinformatics, 2023 - Springer
Background Together with application of next-generation sequencing technologies and
increased accumulation of genomic variation data in different organism species, an …
increased accumulation of genomic variation data in different organism species, an …
A mutation rate model at the basepair resolution identifies the mutagenic effect of polymerase III transcription
De novo mutations occur at substantially different rates depending on genomic location,
sequence context and DNA strand. The success of methods to estimate selection intensity …
sequence context and DNA strand. The success of methods to estimate selection intensity …
Nonparametric coalescent inference of mutation spectrum history and demography
As populations boom and bust, the accumulation of genetic diversity is modulated, encoding
histories of living populations in present-day variation. Many methods exist to decode these …
histories of living populations in present-day variation. Many methods exist to decode these …
GenomeMUSter mouse genetic variation service enables multitrait, multipopulation data integration and analysis
RL Ball, MA Bogue, H Liang, A Srivastava… - Genome …, 2024 - genome.cshlp.org
Hundreds of inbred mouse strains and intercross populations have been used to
characterize the function of genetic variants that contribute to disease. Thousands of disease …
characterize the function of genetic variants that contribute to disease. Thousands of disease …
A modified fluctuation assay reveals a natural mutator phenotype that drives mutation spectrum variation within Saccharomyces cerevisiae
Although studies of Saccharomyces cerevisiae have provided many insights into
mutagenesis and DNA repair, most of this work has focused on a few laboratory strains …
mutagenesis and DNA repair, most of this work has focused on a few laboratory strains …