Martin Schmitz, Lovro Vrček, Kenji Kawaguchi, Mile Šikić (2026). DipGNNome: Diploid de Novo Genome Assembly with Geometric Deep Learning and Beam-Search. In RECOMB-CG.

Martin Schmitz, Lovro Vrček, Kenji Kawaguchi, Mile Šikić (2026). GNNome-Decision: Enhancing GNN Training for de Novo Genome Assembly by Targeting Decision Nodes. In RECOMB-CG.

Maxime Rochkoulets, Lovro Vrček, Mile Šikić (2026). Entropy, Disagreement, and the Limits of Foundation Models in Genomics. Poster at LMRL workshop @ ICLR 2026.

Lovro Vrček, Xavier Bresson, Thomas Laurent, Martin Schmitz, Kenji Kawaguchi, Mile Šikić (2025). Geometric deep learning framework for de novo genome assembly. Genome Research, 35(4).