Yingguang Frank Chan

This study uses experimental evolution in seed beetles to show that structural variants and sex-specific genetic factors influence lifespan evolution.

BLink-seq is a scalable Haplotagging method for generating phased haplotypes and detecting structural variants in non-model species using short-read sequencing.

The paper investigates an outbreak of plant disease caused by two Ralstonia species, identifying mobile genetic elements responsible for interspecies gene exchange and disease spread.

The paper introduces easySHARE-seq, a method for simultaneous single-cell ATAC-seq and RNA-seq, showing improved transcript recovery and scalability in murine liver nuclei.

The paper investigates the genetic basis of warning color variation in wood tiger moths, finding independent loci for male, female, and larval coloration with limited trait associations.

The paper uses linked-read whole-genome data to study reproductive isolation and hybridization patterns between two cryptic brown algal species, revealing polygenic genome-wide barriers to gene flow.

The paper shows that freshwater threespine stickleback fish have evolved expanded copies of the MYH3C gene family, which is linked to muscle development and adaptive divergence from marine populations.

This study shows that G-quadruplexes regulate chromatin accessibility and gene expression in Bloom Syndrome by stabilizing G4s, which enhances chromatin accessibility and promotes gene expression in BLM-deficient cells.

The paper studies hybridization between native and invasive Helicoverpa moths in Brazil, showing rapid adaptive introgression of pesticide resistance genes with implications for global food security.

The paper analyzes replicate flower color hybrid zones in Antirrhinum to identify loci associated with gene flow barriers using haplotagging, FST scans, and genealogical methods.

This study uses population genomic data to trace the evolutionary history of giant mice on the Faroe Islands, revealing hybrid origins, Viking-era colonization, and challenges in identifying genes under selection.

The paper analyzes 1,375 Malawi cichlid genomes to show that sex-linked chromosomal inversions drive adaptive speciation through introgression and selection on neuro-sensory, physiological, and reproductive genes.

The paper identifies an XY sex chromosome system in fourspine stickleback with polymorphic inversions on both X and Y chromosomes, revealing new insights into sex chromosome evolution.

The paper introduces a copy number normalization pipeline to distinguish differential signals in ATAC-seq and ChIP-seq driven by copy number differences from other factors.

The paper identifies genetic loci underlying bill color variation in long-tailed finches, showing that yellow alleles arose and introgressed into a red subspecies under natural selection.

This study introduces CITR-seq, a method for single-cell TCR sequencing, and shows genetic factors significantly shape TCR repertoires in mice.

The paper compares TCR loci in mice and related species, finding recent contraction in the variable gene cluster in Mus musculus castaneus and expression of atypically oriented variable genes.

The paper identifies and quantifies chimeric sequencing reads in a highly multiplexed RAD-seq protocol, finding higher misassignment rates in pooled PCR libraries.

The paper uses ddRAD-seq to analyze genetic divergence and population structure in two Apodemus species in northern Poland, finding clear species differentiation and limited population structure within A. flavicollis.

The paper reduces the Hstx2 locus to a 2.70 Mb interval, identifies it as a recombination cold spot, and finds a copy number polymorphism of the Mir465 microRNA cluster.

This paper introduces an in vitro cross method using mitotic recombination in hybrid mouse embryonic stem cells to map species differences and generate mosaic mice.