| Year |
Citation |
Score |
| 2022 |
Zhelezov G, Degnan JH. Trying Out a Million Genes to Find the Perfect Pair with RTIST. Bioinformatics (Oxford, England). PMID 35641003 DOI: 10.1093/bioinformatics/btac349 |
0.491 |
|
| 2021 |
Alanzi AAR, Degnan JH. Statistical inconsistency of the unrooted minimize deep coalescence criterion. Plos One. 16: e0251107. PMID 33970931 DOI: 10.1371/journal.pone.0251107 |
0.542 |
|
| 2021 |
Kim A, Degnan JH. Heuristics for unrooted, unranked, and ranked anomaly zones under birth-death models. Molecular Phylogenetics and Evolution. 107162. PMID 33831548 DOI: 10.1016/j.ympev.2021.107162 |
0.504 |
|
| 2020 |
Kim A, Degnan J. PRANC: ML species tree estimation from the ranked gene trees under coalescence. Bioinformatics (Oxford, England). PMID 32609371 DOI: 10.1093/Bioinformatics/Btaa605 |
0.546 |
|
| 2019 |
Kim A, Rosenberg NA, Degnan JH. Probabilities of unranked and ranked anomaly zones under birth-death models. Molecular Biology and Evolution. PMID 31860090 DOI: 10.1093/Molbev/Msz305 |
0.585 |
|
| 2017 |
Degnan JH. Modeling hybridization under the network multispecies coalescent. Systematic Biology. PMID 29846734 DOI: 10.1093/Sysbio/Syy040 |
0.381 |
|
| 2017 |
Allman ES, Degnan JH, Rhodes JA. Split Probabilities and Species Tree Inference Under the Multispecies Coalescent Model. Bulletin of Mathematical Biology. PMID 29127546 DOI: 10.1007/S11538-017-0363-5 |
0.56 |
|
| 2017 |
Alanzi ARA, Degnan JH. Inferring rooted species trees from unrooted gene trees using approximate Bayesian computation. Molecular Phylogenetics and Evolution. PMID 28780022 DOI: 10.1016/J.Ympev.2017.07.017 |
0.583 |
|
| 2016 |
Allman E, Degnan J, Rhodes J. Species tree inference from gene splits by Unrooted STAR methods. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 28113601 DOI: 10.1109/Tcbb.2016.2604812 |
0.598 |
|
| 2016 |
Zhu S, Degnan JH. Displayed Trees Do Not Determine Distinguishability Under the Network Multispecies Coalescent. Systematic Biology. PMID 27780899 DOI: 10.1093/Sysbio/Syw097 |
0.495 |
|
| 2016 |
Allman E, Degnan J, Rhodes J. Species tree inference from gene splits by Unrooted STAR methods. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. PMID 27608471 DOI: 10.1109/TCBB.2016.2604812 |
0.541 |
|
| 2016 |
Stadler T, Degnan JH, Rosenberg NA. Does gene tree discordance explain the mismatch between macroevolutionary models and empirical patterns of tree shape and branching times? Systematic Biology. PMID 26968785 DOI: 10.1093/Sysbio/Syw019 |
0.587 |
|
| 2015 |
Zhu S, Degnan JH, Goldstien SJ, Eldon B. Hybrid-Lambda: simulation of multiple merger and Kingman gene genealogies in species networks and species trees. Bmc Bioinformatics. 16: 292. PMID 26373308 DOI: 10.1186/S12859-015-0721-Y |
0.502 |
|
| 2015 |
Degnan JH, Rhodes JA. There are no caterpillars in a wicked forest. Theoretical Population Biology. 105: 17-23. PMID 26365816 DOI: 10.1016/J.Tpb.2015.08.007 |
0.576 |
|
| 2014 |
DeGiorgio M, Degnan JH. Robustness to divergence time underestimation when inferring species trees from estimated gene trees. Systematic Biology. 63: 66-82. PMID 23988674 DOI: 10.1093/Sysbio/Syt059 |
0.554 |
|
| 2013 |
Degnan JH. Anomalous unrooted gene trees. Systematic Biology. 62: 574-90. PMID 23576318 DOI: 10.1093/Sysbio/Syt023 |
0.593 |
|
| 2013 |
Degnan JH. Evaluating variations on the STAR algorithm for relative efficiency and sample sizes needed to reconstruct species trees. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 262-72. PMID 23424131 |
0.446 |
|
| 2013 |
Allman ES, Degnan JH, Rhodes JA. Species tree inference by the STAR method and its generalizations. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 20: 50-61. PMID 23294273 DOI: 10.1089/Cmb.2012.0101 |
0.542 |
|
| 2012 |
Degnan JH, Rosenberg NA, Stadler T. A characterization of the set of species trees that produce anomalous ranked gene trees. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 9: 1558-68. PMID 22868677 DOI: 10.1109/Tcbb.2012.110 |
0.606 |
|
| 2012 |
Eldon B, Degnan JH. Multiple merger gene genealogies in two species: Monophyly, paraphyly, and polyphyly for two examples of Lambda coalescents. Theoretical Population Biology. 82: 117-30. PMID 22613063 DOI: 10.1016/J.Tpb.2012.05.001 |
0.399 |
|
| 2012 |
Stadler T, Degnan JH. A polynomial time algorithm for calculating the probability of a ranked gene tree given a species tree. Algorithms For Molecular Biology : Amb. 7: 7. PMID 22546066 DOI: 10.1186/1748-7188-7-7 |
0.557 |
|
| 2012 |
Yu Y, Degnan JH, Nakhleh L. The probability of a gene tree topology within a phylogenetic network with applications to hybridization detection. Plos Genetics. 8: e1002660. PMID 22536161 DOI: 10.1371/Journal.Pgen.1002660 |
0.569 |
|
| 2012 |
Degnan JH, Rosenberg NA, Stadler T. The probability distribution of ranked gene trees on a species tree. Mathematical Biosciences. 235: 45-55. PMID 22075548 DOI: 10.1016/J.Mbs.2011.10.006 |
0.587 |
|
| 2011 |
Allman ES, Degnan JH, Rhodes JA. Determining species tree topologies from clade probabilities under the coalescent. Journal of Theoretical Biology. 289: 96-106. PMID 21867714 DOI: 10.1016/J.Jtbi.2011.08.006 |
0.578 |
|
| 2011 |
DeGiorgio M, Degnan JH, Rosenberg NA. Coalescence-time distributions in a serial founder model of human evolutionary history. Genetics. 189: 579-93. PMID 21775469 DOI: 10.1534/Genetics.111.129296 |
0.32 |
|
| 2011 |
Zhu S, Degnan JH, Steel M. Clades, clans, and reciprocal monophyly under neutral evolutionary models. Theoretical Population Biology. 79: 220-7. PMID 21420994 DOI: 10.1016/J.Tpb.2011.03.002 |
0.417 |
|
| 2011 |
Yu Y, Than C, Degnan JH, Nakhleh L. Coalescent histories on phylogenetic networks and detection of hybridization despite incomplete lineage sorting. Systematic Biology. 60: 138-49. PMID 21248369 DOI: 10.1093/Sysbio/Syq084 |
0.506 |
|
| 2011 |
Allman ES, Degnan JH, Rhodes JA. Identifying the rooted species tree from the distribution of unrooted gene trees under the coalescent. Journal of Mathematical Biology. 62: 833-62. PMID 20652704 DOI: 10.1007/S00285-010-0355-7 |
0.602 |
|
| 2011 |
Wang Y, Degnan JH. Performance of Matrix representation with parsimony for inferring species from gene trees Statistical Applications in Genetics and Molecular Biology. 10. DOI: 10.2202/1544-6115.1611 |
0.547 |
|
| 2010 |
Rosenberg NA, Degnan JH. Coalescent histories for discordant gene trees and species trees. Theoretical Population Biology. 77: 145-51. PMID 20064540 DOI: 10.1016/J.Tpb.2009.12.004 |
0.579 |
|
| 2010 |
DeGiorgio M, Degnan JH. Fast and consistent estimation of species trees using supermatrix rooted triples. Molecular Biology and Evolution. 27: 552-69. PMID 19833741 DOI: 10.1093/Molbev/Msp250 |
0.582 |
|
| 2009 |
Degnan JH, DeGiorgio M, Bryant D, Rosenberg NA. Properties of consensus methods for inferring species trees from gene trees. Systematic Biology. 58: 35-54. PMID 20525567 DOI: 10.1093/Sysbio/Syp008 |
0.59 |
|
| 2009 |
Degnan JH, Rosenberg NA. Gene tree discordance, phylogenetic inference and the multispecies coalescent. Trends in Ecology & Evolution. 24: 332-40. PMID 19307040 DOI: 10.1016/J.Tree.2009.01.009 |
0.521 |
|
| 2008 |
Degnan JH, Lasky-Su J, Raby BA, Xu M, Molony C, Schadt EE, Lange C. Genomics and genome-wide association studies: an integrative approach to expression QTL mapping. Genomics. 92: 129-33. PMID 18586451 DOI: 10.1016/J.Ygeno.2008.05.012 |
0.311 |
|
| 2007 |
Kubatko LS, Degnan JH. Inconsistency of phylogenetic estimates from concatenated data under coalescence. Systematic Biology. 56: 17-24. PMID 17366134 DOI: 10.1080/10635150601146041 |
0.642 |
|
| 2006 |
Degnan JH, Rosenberg NA. Discordance of species trees with their most likely gene trees. Plos Genetics. 2: e68. PMID 16733550 DOI: 10.1371/Journal.Pgen.0020068 |
0.588 |
|
| 2005 |
Degnan JH, Salter LA. Gene tree distributions under the coalescent process. Evolution; International Journal of Organic Evolution. 59: 24-37. PMID 15792224 DOI: 10.1554/04-385 |
0.588 |
|
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