‘Lassoing’ a phylogenetic tree I: basic properties, shellings, and covers
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The BLS phylogenies are closer to the reference than standard MSA approaches, according to Kendall-Colijn and Triplet distance metrics.
“Our phylogenetic similarity results, shown in Table 1 for two distance metrics, Kendall–Colijn37 and Triplet38 distance, indicate that the BLS phylogenies are closer to the reference than standard MSA approaches.”
From Improving microbial phylogeny with citizen science within a mass-market video game (2025) · cites this paper as [38]
The Introduction (pp. 1–2) addresses reconstructing trees from incomplete leaf-to-leaf distances, not comparing BLS phylogenies with standard MSA approaches. The copy does not address the claimed results or identify Kendall–Colijn or Triplet distance as comparison metrics; searches for those terms found no relevant passage. (LLM, conf=0.73)
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Research works printed but not linked: 7
- [2][2] Barth´ elemy JP, Gu´ eoche A (1991) Trees and Proximity Representations. John Wiley and Sons Ltd. -
- [4][4] Chaiken S, Dewdney AK, Slater PJ (1983) An optimal diagonal tree code. SIAM J Alg Disc Math 4(1): 42-49. -
- [5][5] Colonius, H. and Schulze, H. H. (1981). Tree structures for proximity data. British Journal of Mathematical and Statistical Psychology, 34: 167-180. -
- [9][9] Dress A, Huber K, Koolen J, Moulton V, Spillner A (2011) Basic Phylogenetic Combinatorics. Cambridge University Press (in press). -
- [12][12] Gu´ enoche A, Leclerc B (2001) The triangles method to build X -trees from incomplete distance matrices. ROADEF'99 (Autrans) RAIRO Oper Res 35(2): 283-300. -
- [16][16] Semple C, Steel M (2003) Phylogenetics. Oxford University Press. -
- [18][18] Willson SJ (2004) Computing rooted supertrees using distances. Bull Math Biol 66(6): 1755-1783.
Cited by
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Improving microbial phylogeny with citizen science within a mass-market video game
Sarrazin-Gendron, R., Ghasemloo Gheidari, P., Butyaev, A., Keding, T., Cai, E., Zheng, J., Mutalova, R., Mounthanyvong, J., Zhu, Y., Nazarova, E., et al. (2025) · Nature Biotechnology · doi:10.1038/s41587-024-02175-6 · Cited by 9 · see citing works
- Authors
- Dress, A. W. M., Huber, K. T., & Steel, M.
- Affiliations
- Chinese Academy of Sciences (CN)
- University of East Anglia (GB)
- University of Canterbury (NZ)
- Corresponding author
- Huber, Katharina T.
- Venue
- Journal of Mathematical Biology
- Published
- 2011-07-07
- Volume
- 65
- Issue
- 1
- Pages
- 77-105
- ISSN
- 0303-6812 (ISSN-L)
- 1432-1416
- OpenAlex
- W1995427389
- Cited by
- 20
- References
- 0
- Citations by year
- 2024: 2 · 2018: 2 · 2017: 2 · 2015: 3 · 2014: 4 · 2013: 4 · 2012: 3
- FWCI
- 1.42
- Type
- journal article
- Language
- en
- Open access
- green
- arxiv.org
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Journal of Mathematical Biology (publishedVersion)
- PubMed (publishedVersion)
- arXiv (Cornell University) (submittedVersion)
- Max Planck Institute for Plasma Physics (submittedVersion)
- PUB – Publications at Bielefeld University (Bielefeld University) (submittedVersion)
- UEA Digital Repository (University of East Anglia) (submittedVersion)
- arXiv (Cornell University)
- Funders
- University of Canterbury
- Royal Society
- Max-Planck-Gesellschaft
- Engineering and Physical Sciences Research Council (EP/D068800/1)
- Marsden Fund
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Physical Sciences › Mathematics › Mathematical Physics › Stochastic processes and statistical mechanics
- Physical Sciences › Computer Science › Computational Theory and Mathematics › Advanced Graph Theory Research
- Keywords
- phylogenetic inference, edge-weighted trees, shelling, tree cover, genetic distance, speciation events
- MeSH terms
- Biological Evolution, Models, Genetic, Phylogeny
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