Nicolas Delhomme

A transcriptome atlas of zygotic and somatic embryogenesis in Norway spruce

This paper presents a transcriptome atlas comparing zygotic and somatic embryogenesis in Norway spruce to identify gene regulatory differences and improve plant production.

An Improved Chromosome-scale Genome Assembly and Population Genetics resource for Populus tremula.

The paper presents an improved chromosome-scale genome assembly for Populus tremula and integrates population genetics and genomics data to study leaf physiognomy traits through GWAS and functional analysis.

Gene co-expression network analysis reveal core responsive genes in Parascaris univalens tissues following ivermectin exposure

This study identifies tissue-specific gene co-expression networks and core genes in Parascaris univalens following ivermectin exposure, revealing differential transcriptional responses and potential resistance mechanisms.

Seidr: Efficient Calculation of Robust Ensemble Gene Networks

Seidr is a toolkit for gene regulatory and co-expression network inference that reduces algorithmic bias and improves robustness across species and conditions.

Sex without crossing over in the yeast Saccharomycodes ludwigii

The paper shows that Saccharomycodes ludwigii undergoes meiosis without recombination, relying on frequent fertilization within tetrads instead.

ProkSeq for complete analysis of RNA-seq data from prokaryotes

ProkSeq is an RNA-seq analysis pipeline for prokaryotes that automates quality control, differential expression, normalization, and visualization.

The mitogenome of Norway spruce and a reappraisal of mitochondrial recombination in plants

The paper assembles the Norway spruce mitogenome using machine learning and long reads, revealing heterogeneous recombination dynamics and active small repeats in plant mitogenomes.

Transcriptome and translatome profiling and translational network analysis during seed maturation reveals conserved transcriptional and distinct translational regulatory patterns

The paper profiles transcriptome and translatome during seed maturation, identifies translational regulatory patterns, and constructs a network to uncover gene regulation and function.