Teunis J. P. van Dam

This paper uses bulk RNA sequencing and machine learning to classify pyrogenic contaminants by analyzing monocyte activation signatures.

The paper evaluates factors affecting protein interaction prediction using phylogenetic profiles in eukaryotes, finding that orthologous group and interactome selection have greater impact than genome selection.

This paper evaluates orthology methods by comparing their ability to recapitulate patterns of eukaryotic genome evolution, finding similar overall behavior but significant differences in inferred orthologous groups.

The paper identifies 285 candidate ciliary genes using integrated genomic, proteomic, and transcriptomic data, validated by experimental evidence and creating a resource for ciliopathy research.