Sisi Yuan

The paper compares genome sequences and genetic variations of three eared pheasant species at different altitudes to identify adaptation mechanisms.

HRannot provides an accurate and user-friendly gene annotation pipeline for vertebrate genomes, outperforming existing tools and enabling annotation of both known and novel genes.

The paper identifies widespread loss-of-function mutations in chicken genomes during evolution and domestication, showing non-random patterns and selection-driven gene loss.

The paper predicts functional states and types of cis-regulatory modules (CRMs) across 107 cell/tissue types, revealing that dual-functional CRMs and silencers are more prevalent than previously thought.

The paper annotates four high-quality chicken genomes, identifying over 1,400 missing genes in sub-telomeric regions with high G/C content that were previously absent from reference annotations.

The paper presents a high-quality genome assembly for the white-eared pheasant and related transcriptome and population genetics data.

This study identifies numerous selective sweeps and genes under artificial selection in indigenous and commercial chickens using re-sequencing and statistical analysis.