Matthias Lienhard

Clone-level multi-modal prediction of tumour drug response

This paper introduces scClone2DR, a framework predicting tumour drug response at the clone level using single-cell DNA/RNA sequencing and drug-screening data, showing improved accuracy in identifying clonal sensitivities and resistance.

Systematic assessment of long-read RNA-seq methods for transcript identification and quantification

Benchmarking six long-read RNA-seq protocol-platform combinations and 14 tools across human, mouse, and manatee shows read length and accuracy drive isoform detection, depth drives quantification.

Long-read transcriptome sequencing analysis with IsoTools

The paper introduces IsoTools, a Python package for analyzing long-read transcriptome data, showing it improves alternative and differential splicing analysis compared to short-read RNA-Seq.