Liisa Holm

DaliScope analyzes DALI structural alignments to uncover protein relationships and structural patterns, revealing unannotated domains and structurally anchored sequence signatures.

This paper reports on the fourth CAFA challenge, showing improvements in Gene Ontology term prediction but highlighting challenges in new evaluation settings.

The paper uses cryo-EM to determine the structure of Ictalurid herpesvirus 1, revealing conserved and novel features including a portal-vertex tegument protein with multiple macrodomain-like folds.

The paper tests preprocessing methods and classifiers for protein function prediction using InterProScan data, finding that preprocessing and stacking improve performance, outperforming CAFA3 competitors.

The paper introduces a novel NGS pipeline called LAZYPIPE for virus discovery across diverse hosts and samples, demonstrating its ability to identify both known and novel viruses.

The paper reports results from the CAFA3 challenge, showing improved computational protein function prediction and new annotations for over 1000 genes through experimental screens in C. albicans, P. aureginosa, and Drosophila.

The paper compares 37 Gene Ontology evaluation metrics using Artificial Dilution Series, revealing significant performance differences and proposing improvements.