Denis Milan A

Goat genome assemblies, nine breeds for pangenome contribution

The paper presents high-quality genome assemblies for nine goat breeds using long-read sequencing, contributing to pangenome construction and structural variant analysis.

Genetic and heat-stress related environmental influences on pig whole-blood gene expression levels

The paper investigates the genetic and heat-stress environmental influences on gene expression in pigs, identifying differentially expressed genes, eQTLs, and candidate genes for traits like backfat thickness.

Assembly of a pangenome uncovers novel non-reference unique insertion sequences in cattle highlighting their genetic diversity

The paper constructs a cattle pangenome to identify novel non-reference unique insertions (NRUIs) and links them to economically important traits.

Comprehensive detection of structural variations in long and short reads dataset of French cattle

The paper detects structural variants in French cattle using long and short-read data, identifying 25,191 deletions and 30,118 insertions across 14 breeds.

Application of a French cattle pangenome, from structural variant discovery to association studies on key phenotypes

The paper constructs a bovine pangenome using long-read sequencing and identifies structural variants associated with key phenotypes in French cattle breeds.

Benchmarking long-read genome assemblers for three sequencing protocols and three agricultural species

This study benchmarks long-read genome assemblers across three agricultural species and three sequencing protocols to evaluate their performance and provide insights into optimal tool and technology combinations.

metagWGS, a comprehensive workflow to analyze metagenomic data using Illumina or PacBio HiFi reads

metagWGS is a workflow for metagenomic analysis using short or long reads, producing high-quality genome bins and comprehensive annotations.

Massive detection of cryptic recessive genetic defects in cattle mining millions of life histories

The paper detects recessive genetic defects in cattle using genomic data and life history analysis, identifying 33 new loci linked to juvenile mortality.