Corinne Da Silva

The paper introduces the JEDI marker as a universal biodiversity measure, demonstrating its applicability across ecological scales and providing an automated bioinformatic workflow for standardized analysis.

The paper analyzes metatranscriptomes across a North Atlantic-Arctic gradient, finding differential and convergent gene expression changes in eukaryotic phytoplankton at the polar front.

The paper reports higher gene counts in two coral genomes due to tandem duplications, suggesting a role in immune system and disease resistance.

The paper presents a new long-read assembly of the Brassica napus Darmor-bzh genome using nanopore sequencing, optical and genetic maps, resulting in a highly contiguous and complete reference genome.

The paper compares nanopore RNA-Seq and cDNA-Seq for transcriptome profiling in mouse brain and liver, finding that nanopore RNA-Seq is more efficient but cDNA-Seq introduces bias due to read truncation.

This paper benchmarks long-read error-correction tools on RNA-sequencing data, finding they improve base-pair accuracy but affect gene family sizes and isoform diversity.

This paper introduces a de novo clustering algorithm for long-read transcriptomics data, showing improved performance for Oxford Nanopore reads and non-model species.

The paper introduces a method to separate host and symbiont reads in holobiont transcriptomes, improving assembly quality and enabling functional analysis.

The paper uses a sequence similarity network to analyze dinoflagellate transcriptomes, identifying novel protein domains linked to toxicity and symbiosis.

This study compares genomes of ameiotic root-knot nematodes to meiotic relatives, finding TE-rich composite genomes from hybridization events that may enhance parasitic success without sex.