H. Ogilvie

发表

StarBEAST2 Brings Faster Species Tree Inference and Accurate Estimates of Substitution Rates

Huw A. Ogilvie, R. Bouckaert, A. Drummond, 2016, bioRxiv.

Diversification of the C-TERMINALLY ENCODED PEPTIDE (CEP) gene family in angiosperms, and evolution of plant-family specific CEP genes

M. Djordjevic, H. Ogilvie, N. Imin, 2014, BMC Genomics.

Computational Performance and Statistical Accuracy of *BEAST and Comparisons with Other Methods

Huw A. Ogilvie, Alexei J. Drummond, Dong Xie, 2015, Systematic biology.

Hidden genomic diversity of SARS-CoV-2: implications for qRT-PCR diagnostics and transmission

Huw A. Ogilvie, R. A. Leo Elworth, C. Mason, 2020, bioRxiv.

Unifying Gene Duplication, Loss, and Coalescence on Phylogenetic Networks

Luay Nakhleh, Huw A. Ogilvie, Peng Du, 2019, bioRxiv.

Maximum Parsimony Inference of Phylogenetic Networks in the Presence of Polyploid Complexes

L. Nakhleh, H. Ogilvie, Zhi Yan, 2021, Systematic biology.

SARS-CoV-2 genomic diversity and the implications for qRT-PCR diagnostics and transmission

T. Treangen, F. Sedlazeck, I. Maljkovic Berry, 2021 .

“Correcting” gene trees to be more like species trees increases topological error when incomplete lineage sorting is high

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2022, bioRxiv.

MoTERNN: Classifying the Mode of Cancer Evolution Using Recursive Neural Networks

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2022, bioRxiv.

MaCroDNA: Accurate integration of single-cell DNA and RNA 1 data for a deeper understanding of tumor heterogeneity

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2022 .

SARS-CoV-2 genomic diversity and the implications for qRT-PCR diagnostics and transmission

Huw A. Ogilvie, C. Mason, T. Treangen, 2021, Genome research.

Comparing Inference under the MSC versus the MSC-with-Recombination

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2022, bioRxiv.

Rosette core fungal resistance in Arabidopsis thaliana

Huw A. Ogilvie, L. M. Markillie, G. Orr, 2019, Planta.

Annotation-free delineation of prokaryotic homology groups

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2022, PLoS Comput. Biol..

The Impact of Model Misspecification on Phylogenetic Network Inference

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2022, bioRxiv.

microRNA profiling of root tissues and root forming explant cultures in Medicago truncatula

Huw A. Ogilvie, Rodney P Eyles, Philip H. Williams, 2013, Planta.

BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis

Sebastián Duchêne, Graham Jones, Igor Siveroni, 2018, bioRxiv.

Validation and description of two new north-western Australian Rainbow skinks with multispecies coalescent methods and morphology

Huw A. Ogilvie, C. Moritz, H. Ogilvie, 2017, PeerJ.

MaCroDNA: Accurate integration of single-cell DNA and RNA data for a deeper understanding of tumor heterogeneity

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2023, bioRxiv.

Practical Speedup of Bayesian Inference of Species Phylogenies by Restricting the Space of Gene Trees

Luay Nakhleh, Huw A. Ogilvie, Yaxuan Wang, 2019, bioRxiv.

Bayesian Inference of Species Networks from Multilocus Sequence Data

Tanja Stadler, Huw A. Ogilvie, Alexei J Drummond, 2017, bioRxiv.

Phylovar: Towards scalable phylogeny-aware inference of single-nucleotide variations from single-cell DNA sequencing data

Huw A. Ogilvie, L. Nakhleh, D. Posada, 2022, bioRxiv.

Fungal phytopathogens encode functional homologues of plant rapid alkalinization factor (RALF) peptides.

Huw A. Ogilvie, David A Jones, P. Solomon, 2017, Molecular plant pathology.

The peptide-encoding CEP1 gene modulates lateral root and nodule numbers in Medicago truncatula.

Huw A. Ogilvie, M. Djordjevic, H. Ogilvie, 2013, Journal of experimental botany.

Phylogenomic assessment of the role of hybridization and introgression in trait evolution

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2020, bioRxiv.

Advances in Computational Methods for Phylogenetic Networks in the Presence of Hybridization

Huw A. Ogilvie, R.A.L. Elworth, H. A. Ogilvie, 2018, Bioinformatics and Phylogenetics.

Maximum Parsimony Inference of Phylogenetic Networks in the Presence of Polyploid Complexes

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2020, bioRxiv.

Practical Aspects of Phylogenetic Network Analysis Using PhyloNet

Xinhao Liu, Zhi Yan, Zhen Cao, 2019, bioRxiv.

Comparing Inference under the Multispecies Coalescent with and without Recombination.

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2023, Molecular phylogenetics and evolution.

Novel Integrative Modeling of Molecules and Morphology across Evolutionary Timescales

Huw A. Ogilvie, A. Drummond, T. Vaughan, 2021, Systematic biology.

Inferring Species Trees Using Integrative Models of Species Evolution

Tanja Stadler, Huw A. Ogilvie, Alexei J. Drummond, 2018, bioRxiv.

Supporting per-locus substitution rates improves the accuracy of species networks and avoids spurious reticulations

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2022, bioRxiv.

NestedBD: Bayesian Inference of Phylogenetic Trees From Single-Cell DNA Copy Number Profile Data Under a Birth-Death Model

Huw A. Ogilvie, L. Nakhleh, H. Ogilvie, 2022, bioRxiv.

Variational inference using approximate likelihood under the coalescent with recombination

Xinhao Liu, Luay Nakhleh, Huw A. Ogilvie, 2020, bioRxiv.

Phylogenetic Network Dissimilarity Measures That Take Branch Lengths Into Account

L. Nakhleh, H. Ogilvie, Berk A. Yakici, 2022, bioRxiv.

Joint inference of species histories and gene flow

Huw A. Ogilvie, Nicola F. Müller, A. Drummond, 2018 .

Diversification of the C-TERMINALLY ENCODED PEPTIDE (CEP) gene family in angiosperms, and evolution of plant-family specific CEP genes

Huw A. Ogilvie, M. Djordjevic, H. Ogilvie, 2014, BMC Genomics.

CEP–CEPR1 signalling inhibits the sucrose-dependent enhancement of lateral root growth

Huw A. Ogilvie, M. Djordjevic, H. Ogilvie, 2019, Journal of experimental botany.

Inference of species histories in the presence of gene flow

Tanja Stadler, Huw A. Ogilvie, Alexei J. Drummond, 2018, bioRxiv.