Items where Research Group is "Computational Biology

Article

Boulton, William ORCID: https://orcid.org/0000-0002-8258-4673, Salamov, Asaf, Grigoriev, Igor V., Calhoun, Sara, LaButti, Kurt, Riley, Robert, Barry, Kerrie, Fong, Allison A., Hoppe, Clara J. M., Metfies, Katja, Oetjen, Kersten, Eggers, Sarah Lena, Müller, Oliver, Gardner, Jessie, Granskog, Mats A., Torstensson, Anders, Oggier, Marc, Larsen, Aud, Bratbak, Gunnar, Toseland, Andrew, Leggett, Richard M., Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 and Mock, Thomas ORCID: https://orcid.org/0000-0001-9604-0362 (2025) Metagenome-assembled-genomes recovered from the Arctic drift expedition MOSAiC. Scientific Data, 12. ISSN 2052-4463

Bryant, David, Huber, Katharina T. ORCID: https://orcid.org/0000-0002-6368-7511, Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 and Spillner, Andreas (2025) Buneman graphs, partial splits and subtree distances. Discrete Applied Mathematics, 369. pp. 28-44. ISSN 0166-218X

Bryant, David, Huber, Katharina T. ORCID: https://orcid.org/0000-0002-6368-7511, Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 and Spillner, Andreas (2025) Subtree distances, tight spans and diversities. Topology and its Applications, 373. ISSN 0166-8641

Holtgrefe, Niels, Allman, Elizabeth S., Baños, Hector, van Iersel, Leo, Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435, Rhodes, John A. and Wicke, Kristina (2025) Distinguishing phylogenetic level-2 networks with quartets and inter-taxon quartet distances. Bulletin of Mathematical Biology, 87. ISSN 0092-8240

Holtgrefe, Niels, Huber, Katharina ORCID: https://orcid.org/0000-0002-6368-7511, van Iersel, Leo, Jones, Mark, Martin, Samuel and Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 (2025) SQUIRREL: Reconstructing semi-directed phylogenetic level-1 networks from four-leaved networks or sequence alignments. Molecular Biology and Evolution, 42 (4). ISSN 0737-4038

Holtgrefe, Niels, Huber, Katharina T. ORCID: https://orcid.org/0000-0002-6368-7511, van Iersel, Leo, Jones, Mark and Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 (2025) Characterizing semi-directed phylogenetic networks and their multi-rootable variants. Theory in Biosciences. ISSN 1431-7613 (In Press)

Huber, Katharina ORCID: https://orcid.org/0000-0002-6368-7511, Linz, Simone and Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 (2025) Cherry picking in forests: A new characterization for the unrooted hybrid number of two phylogenetic trees. Discrete Mathematics and Theoretical Computer Science, 272 (2). ISSN 1462-7264

Huber, Katharina T. ORCID: https://orcid.org/0000-0002-6368-7511, van Iersel, Leo, Jones, Mark, Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 and Veenema-Nipius, Leonie (2025) When are quarnets sufficient to reconstruct semi-directed phylogenetic networks? Bulletin of Mathematical Biology, 87 (10). ISSN 0092-8240

Huber, Katharina T. ORCID: https://orcid.org/0000-0002-6368-7511, van Iersel, Leo, Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 and Scholz, Guillaume E. (2025) Is this network proper forest-based? Information Processing Letters, 187. ISSN 0020-0190

Iakovou, Georgios, Palmer, Leoni, Ganesan, A., Kitao, Akio, Laycock, Stephen D. and Hayward, Steven ORCID: https://orcid.org/0000-0001-6959-2604 (2025) Interactive docking workshop: Docking the anticancer drug Belinostat to its cellular histone deacetylase (HDAC) target. Journal of Chemical Education, 102 (6). 2514–2521. ISSN 0021-9584

Iakovou, Georgios, Palmer, Leoni, Ganesan, A., Kitao, Akio, Laycock, Stephen D. and Hayward, Steven ORCID: https://orcid.org/0000-0001-6959-2604 (2025) Protein domain movement involved in binding of belinostat and HPOB as inhibitors of histone deacetylase 6 (HDAC6): a hybrid automated-interactive docking study. Journal of Computer-Aided Molecular Design, 39. ISSN 0920-654X

Lafond, Manuel and Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 (2025) Path partitions of phylogenetic networks. Theoretical Computer Science, 1024. ISSN 0304-3975

Martin, Samuel, Holtgrefe, Niels, Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 and Leggett, Richard M. (2025) Algebraic invariants for inferring 4-leaf semi-directed phylogenetic networks. Systematic Biology, 75 (4). pp. 657-672. ISSN 1063-5157

Moulton, Vincent ORCID: https://orcid.org/0000-0001-9371-6435 and Spillner, Andreas (2025) Spaces of ranked tree-child networks. Journal of Mathematical Biology, 91. ISSN 0303-6812

Winder, Johanna C. ORCID: https://orcid.org/0000-0002-7509-772X, Poulton, Simon, Wu, Taoyang ORCID: https://orcid.org/0000-0002-2663-2001, Mock, Thomas ORCID: https://orcid.org/0000-0001-9604-0362 and van Oosterhout, Cock ORCID: https://orcid.org/0000-0002-5653-738X (2025) Environmental adaptations in metagenomes revealed by deep learning. BMC Biology, 23. ISSN 1741-7007

Book Section

Holdsworth, Katerina, Iakovou, Georgios, Hayward, Steven ORCID: https://orcid.org/0000-0001-6959-2604 and Laycock, Stephen (2025) GPU-accelerated Cartoon Representation for Interactive Flexible Docking. In: Computer Graphics and Visual Computing (CGVC). UNSPECIFIED.

Liu, Hexuan, Lu, Bing-Ze, Wu, Taoyang ORCID: https://orcid.org/0000-0002-2663-2001 and Yu, Guan-Ru (2025) Asymptotic Enumeration of Subclasses of Level-2 Phylogenetic Networks. In: EUROCOMB'25. UNSPECIFIED.

Conference or Workshop Item

Edwards, Jacob, Laycock, Stephen, Roebuck, Thomas ORCID: https://orcid.org/0000-0002-1791-6539, Ma, YingLiang ORCID: https://orcid.org/0000-0001-5770-5843 and Wang, Cheng ORCID: https://orcid.org/0000-0003-4711-4534 (2025) Level-of-Detail Digitization of High Ceilings in Virtual Reality. In: Digital Heritage 2025 - 4th International Congress, 2025-09-08 - 2025-09-13.

Jones, Adam, Ponte, Santiago, Iglesias, Isaac, Tonge, Nicola, Williamson, David, Martos, Vera, Orth, Till, Schoenberger, Torsten, Cobas, Carlos, Huber, Katharina ORCID: https://orcid.org/0000-0002-6368-7511 and Kemsley, E. Kate ORCID: https://orcid.org/0000-0003-0669-3883 (2025) Message Passing Neural Networks for Predicting 1H and 19F Chemical Shifts. In: Experimental Nuclear Magnetic Resonance Conference 2025, 2025-04-06 - 2025-04-10, Asilomar Conference Center, Pacific Grove, California.