Pengju Zhao

The paper presents a cattle metabolome atlas linking genetic variants to metabolites and traits, revealing colocalization with eQTL and causal gene-metabolite-trait networks.

SheepEpimap combines 516 histone CUT&Tag, ATAC-seq and RNA-seq datasets from 43 sheep tissues to annotate 2.93 million cis-regulatory elements and 145,407 allele-specific variants for trait interpretation.

LATTE quantifies TE expression across species and identifies TE-eQTLs, revealing distinct regulatory mechanisms and additional associations with complex traits.

The paper presents CattleGTEx, a resource characterizing regulatory effects in cattle, resolving GWAS signals and providing insights into adaptive evolution and selection.

The paper identifies sex-specific genetic regulatory effects in chickens using whole-genome sequencing and transcriptomes, revealing sex-dependent gene regulation and structural variants.

The paper constructs a cattle cell-type-specific regulatory variant atlas by integrating bulk and single-cell RNA-seq data, identifying eQTL and linking them to GWAS loci for breeding insights.

The paper analyzes the genomic data of 385 horses from 49 breeds to explore the demographic history and genetic factors influencing body size in ponies, identifying cis-regulatory elements and genetic affinities.

The paper presents PigGTEx, a resource linking genetic variants to transcriptomic phenotypes in pigs, showing pigs' similarity to humans in gene regulation and complex traits.

This paper introduces an improved linear mixed model for multivariate genome-wide association studies that handles incomplete data and reduces computational complexity.

The paper builds a TE atlas in pigs, showing young SINEs' roles in gene regulation, genetic diversity, and complex traits through multi-omics analysis.

The paper presents warthog and Kenyan domestic pig genomes to study ASF resistance, identifying genomic variations and TRIM gene family changes associated with tolerance.

The paper identifies and characterizes unknown porcine protein isoforms using tissue-based proteome maps and improves genome annotation.