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Rearrangement moves on rooted phylogenetic networks.
Gambette P, van Iersel L, Jones M, Lafond M, Pardi F, Scornavacca C. Gambette P, et al. Among authors: jones m. PLoS Comput Biol. 2017 Aug 1;13(8):e1005611. doi: 10.1371/journal.pcbi.1005611. eCollection 2017 Aug. PLoS Comput Biol. 2017. PMID: 28763439 Free PMC article.
Not all phylogenetic networks are leaf-reconstructible.
Erdős PL, van Iersel L, Jones M. Erdős PL, et al. Among authors: jones m. J Math Biol. 2019 Oct;79(5):1623-1638. doi: 10.1007/s00285-019-01405-9. Epub 2019 Jul 30. J Math Biol. 2019. PMID: 31363828 Free PMC article.
Orchard Networks are Trees with Additional Horizontal Arcs.
van Iersel L, Janssen R, Jones M, Murakami Y. van Iersel L, et al. Among authors: jones m. Bull Math Biol. 2022 Jun 21;84(8):76. doi: 10.1007/s11538-022-01037-z. Bull Math Biol. 2022. PMID: 35727410 Free PMC article.
On the consistency of orthology relationships.
Jones M, Paul C, Scornavacca C. Jones M, et al. BMC Bioinformatics. 2016 Nov 11;17(Suppl 14):416. doi: 10.1186/s12859-016-1267-3. BMC Bioinformatics. 2016. PMID: 28185580 Free PMC article.
A Third Strike Against Perfect Phylogeny.
Iersel LV, Jones M, Kelk S. Iersel LV, et al. Among authors: jones m. Syst Biol. 2019 Sep 1;68(5):814-827. doi: 10.1093/sysbio/syz009. Syst Biol. 2019. PMID: 30865279 Free PMC article.
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