Pieter‐Jan Volders

The paper benchmarks 16 circRNA detection tools across three human cell types, finding large differences in sensitivity but consistent precision, and recommends tool combinations for improved detection.

SUsPECT improves variant annotation by using custom long-read transcriptomes to better predict variant effects in clinical settings.

The paper evaluates three DNA sample tracking tools in a whole exome sequencing workflow, finding the pxlence kit most reliable and cost-effective.

The paper compares proteogenomics and open variant search approaches for detecting single amino acid variants in shotgun proteomics data using NA12878 cell line data.

The paper evaluates integrating Percolator into COSS for improved peptide identification sensitivity and specificity using multiple datasets and search tools.

COSS is a spectral library search tool that identifies more peptides faster than existing tools and supports multiple data formats.

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

The paper presents a comprehensive human transcriptome atlas with single-nucleotide resolution, identifying thousands of novel RNA species and regulatory interactions.

The paper identifies focal copy number alterations in lncRNAs across cancer cell lines, suggesting potential oncogenic or tumor suppressive roles.