Ya‐Ping Zhang

Bridging Morphology and Genomics: A rapid image-based assessment of genomic admixture in the endangered gayal (Bos frontalis)

This study develops an AI framework to predict genomic admixture from morphological images of gayal, achieving 87.87% accuracy in admixture estimation.

GWAS and multi-omics uncover the SLC6A3 locus for canine stranger-directed social anxiety and implicate NRIP3 in dopaminergic network regulation

This study uses GWAS and multi-omics to identify SLC6A3 as associated with canine stranger-directed social anxiety and implicates NRIP3 in dopaminergic network regulation.

Puzzle Hi-C: an accurate scaffolding software

Puzzle Hi-C improves chromosome-scale genome assembly by reducing scaffolding interference through a triangle region strategy and dynamic window expansion.

Rapid evolution of fine-scale recombination during domestication: a perspective from population genomics

The paper constructs a fine-scale recombination map in domestic chickens to study rapid evolutionary changes in recombination rates during domestication.

Social Behavior Atlas: A computational framework for tracking and mapping 3D close interactions of free-moving animals

The paper introduces SBeA, a framework for tracking and mapping 3D social interactions in free-moving animals, showing it can detect subtle behavioral abnormalities in mice, birds, and dogs.

Best practices for analyzing imputed genotypes from low-pass sequencing in dogs

The paper evaluates low-pass whole genome sequencing and imputation in dogs, optimizing variant filtering to reduce imputation error and provides guidelines for GWAS using imputed genotypes.

Single-cell RNA-sequencing reveals thoracolumbar vertebra heterogeneity and rib-genesis in pigs

This study uses single-cell RNA-sequencing to analyze thoracolumbar vertebra and rib primordium development in pigs, identifying cell types and gene expression dynamics involved in osteogenesis and angiogenesis.

Dog10K_Boxer_Tasha_1.0: A long-read assembly of the dog reference genome

The paper presents an improved long-read assembly of the dog reference genome, significantly enhancing contiguity and gene annotation.

Integrating Genomic and Transcriptomic Data to Reveal Genetic Mechanisms Underlying Piao Chicken Rumpless Trait

This study identifies genetic mechanisms underlying the rumpless trait in Piao chickens through transcriptomic and genomic analyses, revealing candidate genes and selection pressures.

Genomic analysis of dingoes identifies genomic regions under reversible selection during domestication and feralization

This study analyzes dingo genomes to identify genomic regions under selection during domestication and feralization, finding reversible selection in genes related to neurodevelopment, metabolism, and reproduction.

Canine transmissible venereal tumor genome reveals ancient introgression from coyotes to arctic sled dogs

Identity-By-Descent Refines Mapping Of Candidate Regions For Preaxial Polydactyly In A Large Chinese Pedigree

The paper uses identity-by-descent analysis to refine the candidate region for preaxial polydactyly in a Chinese family, identifying two 380 Kb fragments on chromosome 7q36.

A simple modification of library length for highly divergent gene capture

The paper introduces a modified library length approach for mitochondrial DNA capture, showing improved sequencing depth and completeness across diverse amphibian species.

Evolutionary history of the brown rat: out of southern East Asia and selection

This study sequenced whole genomes of 118 brown rats to trace their origin, migration routes, and domestication, finding they originated in southern East Asia and showing evidence of selection in immune and domestication-related genes.