Celine Everaert

Stimulation strategy matters: A B-cell focused single-cell transcriptomic study on in vitro stimulated immune cells

This study compares B-cell stimulation strategies using single-cell transcriptomics, finding distinct transcriptional responses and cell-cell interactions depending on the stimulation method and time.

A benchmark of DNA methylation deconvolution methods for tumoral fraction estimation using DecoNFlow

This study benchmarks DNA methylation deconvolution methods for tumoral fraction estimation in cfDNA, finding CelFiE most accurate and introducing DecoNFlow as a comprehensive pipeline.

Blocking abundant RNA transcripts by high-affinity oligonucleotides during transcriptome library preparation

The paper introduces a method to block abundant RNA transcripts during library preparation, improving transcriptome coverage and complexity by reducing competition from highly abundant RNAs.

A 3'-end capture sequencing method for high-throughput targeted gene expression profiling

This paper introduces a 3'-end capture sequencing method for targeted gene expression profiling, achieving 100-fold enrichment of target genes with shallow sequencing.

Custom long non-coding RNA capture enhances detection sensitivity in different human sample types

The paper introduces a custom lncRNA capture sequencing approach to improve detection sensitivity of lncRNAs in various human sample types.

Performance evaluation of RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control (exRNAQC) study

The paper evaluates RNA purification kits and blood collection tubes for exRNA quality, finding that preservation tubes and purification methods significantly affect RNA stability, sensitivity, and reproducibility.

SPECS: A non-parameteric method to identify tissue-specific molecular features for unbalanced sample groups

The paper introduces a non-parametric specificity score to identify tissue-specific genes from unbalanced datasets and applies it to GTEx data.

Performance assessment of total RNA sequencing of human biofluids and extracellular vesicles

The paper evaluates the SMARTer Stranded Total RNA-Seq method's performance in quantifying total RNA from various human biofluids and extracellular vesicles, finding it accurate, precise, and capable of detecting thousands of genes.

SMARTer single cell total RNA sequencing

The paper introduces a novel single cell strand-specific total RNA sequencing method that overcomes limitations of existing techniques and detects more genes, including non-polyadenylated ones.

Differential gene expression analysis tools exhibit substandard performance for long non-coding RNA-sequencing data

The paper evaluates DE tools for RNA-seq data, finding poor performance for lncRNAs and highlighting the need for more samples to achieve acceptable sensitivity.