Fabien Degalez

The paper creates a single-nucleus RNA sequencing atlas of the adult chicken liver, revealing cellular composition and showing improved resolution through enhanced genome annotation.

The paper presents new chromosome-level haplotyped genome assemblies for the Japanese quail, improving contiguity and completeness compared to previous references.

The paper uses long-read RNA-seq from diverse human populations to reveal ancestry bias in gene annotations and shows improved transcript discovery with personal genome assemblies.

The ChickenGTEx project provides a multi-tissue reference of regulatory variants in chicken, analyzing their functional impacts and utility in genetics, genomics, and evolutionary studies.

The paper expands the lncRNA catalog using capture long-read RNA sequencing, significantly increasing the number of annotated transcripts in human and mouse genomes.

The paper develops a workflow to detect cross-species orthology of lncRNAs across 13 vertebrate species using syntenic methods and motif analysis, revealing conserved lncRNAs and functional motifs.

This study compares ddRAD-seq and 20X WGS for variant calling and genotyping in laying hens, showing ddRAD-seq can retain 40% of SNPs with 98% reliability after quality control.

GEGA provides a comprehensive chicken gene atlas with genomics and functional data across 47 tissues, integrating multiple databases and offering tools for gene analysis and visualization.

This study examines how different genome builds affect RNA-seq results in rare disease samples and recommends cross-referencing with a database of build-dependent genes for more accurate transcriptomics analysis.

The paper creates an enriched gene atlas for the GRCg7b chicken assembly, increasing the number of annotated lncRNAs and PCGs and providing functional annotations across 47 tissues.