Works by HOLLAND, BARBARA R.

Results: 48

Cold temperature and aridity shape the evolution of drought tolerance traits in Tasmanian species of Eucalyptus.

Published in:

Tree Physiology, 2023, v. 43, n. 9, p. 1493, doi. 10.1093/treephys/tpad065

By:

Hartill, Gabrielle E;
Blackman, Chris J;
Halliwell, Benjamin;
Jones, Rebecca C;
Holland, Barbara R;
Brodribb, Timothy J

Publication type:

Article

On the decision support model for the patient admission scheduling problem with random arrivals and departures: A solution approach.

Published in:

Stochastic Models, 2020, v. 36, n. 2, p. 312, doi. 10.1080/15326349.2020.1742161

By:

Abera, Aregawi K.;
O'Reilly, Małgorzata M.;
Fackrell, Mark;
Holland, Barbara R.;
Heydar, Mojtaba

Publication type:

Article

Level-dependent QBD models for the evolution of a family of gene duplicates.

Published in:

Stochastic Models, 2020, v. 36, n. 2, p. 285, doi. 10.1080/15326349.2019.1680296

By:

Diao, Jiahao;
Stark, Tristan L.;
Liberles, David A.;
O'Reilly, Małgorzata M.;
Holland, Barbara R.

Publication type:

Article

Ancient DNA tracks the mainland extinction and island survival of the Tasmanian devil.

Published in:

Journal of Biogeography, 2018, v. 45, n. 5, p. 963, doi. 10.1111/jbi.13214

By:

Brüniche–Olsen, Anna;
Jones, Menna E.;
Burridge, Christopher P.;
Murchison, Elizabeth P.;
Holland, Barbara R.;
Austin, Jeremy J.

Publication type:

Article

A review of visualisations of protein fold networks and their relationship with sequence and function.

Published in:

2023

By:

Sykes, Janan;
Holland, Barbara R.;
Charleston, Michael A.

Publication type:

Literature Review

Benchmarking Methods of Protein Structure Alignment.

Published in:

Journal of Molecular Evolution, 2020, v. 88, n. 7, p. 575, doi. 10.1007/s00239-020-09960-2

By:

Sykes, Janan;
Holland, Barbara R.;
Charleston, Michael A.

Publication type:

Article

The Ancient Operational Code is Embedded in the Amino Acid Substitution Matrix and aaRS Phylogenies.

Published in:

Journal of Molecular Evolution, 2020, v. 88, n. 2, p. 136, doi. 10.1007/s00239-019-09918-z

By:

Shore, Julia A.;
Holland, Barbara R.;
Sumner, Jeremy G.;
Nieselt, Kay;
Wills, Peter R.

Publication type:

Article

Accuracy of ancestral state reconstruction for non-neutral traits.

Published in:

Scientific Reports, 2020, v. 10, n. 1, p. 1, doi. 10.1038/s41598-020-64647-4

By:

Holland, Barbara R.;
Ketelaar-Jones, Saan;
O'Mara, Aidan R.;
Woodhams, Michael D.;
Jordan, Gregory J.

Publication type:

Article

Live bearing promotes the evolution of sociality in reptiles.

Published in:

Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-02220-w

By:

Halliwell, Ben;
Uller, Tobias;
Holland, Barbara R.;
While, Geoffrey M.

Publication type:

Article

Ancient and Modern Genomes Reveal Microsatellites Maintain a Dynamic Equilibrium Through Deep Time.

Published in:

Genome Biology & Evolution, 2024, v. 16, n. 3, p. 1, doi. 10.1093/gbe/evae017

By:

McComish, Bennet J;
Charleston, Michael A;
Parks, Matthew;
Baroni, Carlo;
Salvatore, Maria Cristina;
Li, Ruiqiang;
Zhang, Guojie;
Millar, Craig D;
Holland, Barbara R;
Lambert, David M

Publication type:

Article

Genomic Scans across Three Eucalypts Suggest that Adaptation to Aridity is a Genome-Wide Phenomenon.

Published in:

Genome Biology & Evolution, 2017, v. 9, n. 2, p. 253, doi. 10.1093/gbe/evw290

By:

Steane, Dorothy A.;
Potts, Brad M.;
McLean, Elizabeth H.;
Collins, Lesley;
Holland, Barbara R.;
Prober, Suzanne M.;
Stock, William D.;
Vaillancourt, René E.;
Byrne, Margaret

Publication type:

Article

Simulating and Summarizing Sources of Gene Tree Incongruence.

Published in:

Genome Biology & Evolution, 2016, v. 8, n. 5, p. 1299, doi. 10.1093/gbe/evw065

By:

Woodhams, Michael D.;
Lockhart, Peter. J.;
Holland, Barbara R.

Publication type:

Article

Missing Data and Influential Sites: Choice of Sites for Phylogenetic Analysis Can Be As Important As Taxon Sampling and Model Choice.

Published in:

Genome Biology & Evolution, 2013, v. 5, n. 4, p. 681, doi. 10.1093/gbe/evt032

By:

Shavit Grievink, Liat;
Penny, David;
Holland, Barbara R.

Publication type:

Article

Analysis of a mechanistic Markov model for gene duplicates evolving under subfunctionalization.

Published in:

BMC Evolutionary Biology, 2017, v. 17, p. 1, doi. 10.1186/s12862-016-0848-0

By:

Stark, Tristan L.;
Liberles, David A.;
Holland, Barbara R.;
O'Reilly, Małgorzata M.

Publication type:

Article

A tensorial approach to the inversion of group-based phylogenetic models.

Published in:

BMC Evolutionary Biology, 2014, v. 14, p. 1, doi. 10.1186/s12862-014-0236-6

By:

Sumner, Jeremy G.;
Jarvis, Peter D.;
Holland, Barbara R.

Publication type:

Article

Using supernetworks to distinguish hybridization from lineage-sorting.

Published in:

BMC Evolutionary Biology, 2008, v. 8, p. 1, doi. 10.1186/1471-2148-8-202

By:

Holland, Barbara R.;
Benthin, Steffi;
Lockhart, Peter J.;
Moulton, Vincent;
Huber, Katharina T.

Publication type:

Article

Detecting Selection on Temporal and Spatial Scales: A Genomic Time-Series Assessment of Selective Responses to Devil Facial Tumor Disease.

Published in:

PLoS ONE, 2016, v. 11, n. 3, p. 1, doi. 10.1371/journal.pone.0147875

By:

Brüniche-Olsen, Anna;
Austin, Jeremy J.;
Jones, Menna E.;
Holland, Barbara R.;
Burridge, Christopher P.

Publication type:

Article

The Shape of Phylogenies Under Phase-Type Distributed Times to Speciation and Extinction.

Published in:

Bulletin of Mathematical Biology, 2022, v. 84, n. 10, p. 1, doi. 10.1007/s11538-022-01072-w

By:

Soewongsono, Albert Ch.;
Holland, Barbara R.;
O’Reilly, Małgorzata M.

Publication type:

Article

Selective Advantages of a Parasexual Cycle for the Yeast Candida albicans.

Published in:

Genetics, 2015, v. 200, n. 4, p. 1117, doi. 10.1534/genetics.115.177170

By:

Ningxin Zhang;
Magee, Beatrice B.;
Magee, Paul T.;
Holland, Barbara R.;
Rodrigues, Ely;
Holmes, Ann R.;
Cannon, Richard D.;
Schmid, Jan

Publication type:

Article

Heterozygosity and functional allelic variation in the Candida albicans efflux pump genes CDR1 and CDR2.

Published in:

Molecular Microbiology, 2006, v. 62, n. 1, p. 170, doi. 10.1111/j.1365-2958.2006.05357.x

By:

Holmes, Ann R.;
Tsao, Sarah;
Ong, Soo-Wee;
Lamping, Erwin;
Niimi, Kyoko;
Monk, Brian C.;
Niimi, Masakazu;
Kaneko, Aki;
Holland, Barbara R.;
Schmid, Jan;
Cannon, Richard D.

Publication type:

Article

Matrix-analytic Methods for the Evolution of Species Trees, Gene Trees, and Their Reconciliation.

Published in:

Methodology & Computing in Applied Probability, 2025, v. 27, n. 1, p. 1, doi. 10.1007/s11009-025-10135-z

By:

Soewongsono, Albert Ch.;
Diao, Jiahao;
Stark, Tristan;
Wilson, Amanda E.;
Liberles, David A.;
Holland, Barbara R.;
O’Reilly, Małgorzata M.

Publication type:

Article

Performance of Akaike Information Criterion and Bayesian Information Criterion in Selecting Partition Models and Mixture Models.

Published in:

Systematic Biology, 2023, v. 72, n. 1, p. 92, doi. 10.1093/sysbio/syac081

By:

Liu, Qin;
Charleston, Michael A;
Richards, Shane A;
Holland, Barbara R

Publication type:

Article

Comparing Partitioned Models to Mixture Models: Do Information Criteria Apply?

Published in:

Systematic Biology, 2022, v. 71, n. 6, p. 1541, doi. 10.1093/sysbio/syac003

By:

Crotty, Stephen M;
Holland, Barbara R

Publication type:

Article

GHOST: Recovering Historical Signal from Heterotachously Evolved Sequence Alignments.

Published in:

Systematic Biology, 2020, v. 69, n. 2, p. 249, doi. 10.1093/sysbio/syz051

By:

Crotty, Stephen M;
Minh, Bui Quang;
Bean, Nigel G;
Holland, Barbara R;
Tuke, Jonathan;
Jermiin, Lars S;
Haeseler, Arndt Von

Publication type:

Article

Distinguishing Between Convergent Evolution and Violation of the Molecular Clock for Three Taxa.

Published in:

Systematic Biology, 2018, v. 67, n. 5, p. 905, doi. 10.1093/sysbio/syy038

By:

Mitchell, Jonathan D;
Sumner, Jeremy G;
Holland, Barbara R

Publication type:

Article

Molecular Evolution: A Statistical Approach.

Published in:

2015

By:

Holland, Barbara R.

Publication type:

Book Review

The Identification of Concerted Convergence in Insect Heads Corroborates Palaeoptera.

Published in:

Systematic Biology, 2013, v. 62, n. 2, p. 250, doi. 10.1093/sysbio/sys091

By:

BLANKE, ALEXANDER;
GREVE, CAROLA;
WIPFLER, BENJAMIN;
BEUTEL, ROLF G.;
HOLLAND, BARBARA R.;
MISOF, BERNHARD

Publication type:

Article

Low-Parameter Phylogenetic Inference Under the General Markov Model.

Published in:

Systematic Biology, 2013, v. 62, n. 1, p. 78, doi. 10.1093/sysbio/sys072

By:

HOLLAND, BARBARA R.;
JARVIS, PETER D.;
SUMNER, JEREMY G.

Publication type:

Article

Novel Distances for Dollo Data.

Published in:

Systematic Biology, 2013, v. 62, n. 1, p. 62, doi. 10.1093/sysbio/sys071

By:

WOODHAMS, MICHAEL;
STEANE, DOROTHY A.;
JONES, REBECCA C.;
NICOLLE, DEAN;
MOULTON, VINCENT;
HOLLAND, BARBARA R.

Publication type:

Article

Is the General Time-Reversible Model Bad for Molecular Phylogenetics?

Published in:

2012

By:

Sumner, Jeremy G.;
Jarvis, Peter D.;
Fernández-Sánchez, Jesús;
Kaine, Bodie T.;
Woodhams, Michael D.;
Holland, Barbara R.

Publication type:

Opinion

Gaps: An Elusive Source of Phylogenetic Information.

Published in:

2012

By:

Saurabh, Kumar;
Holland, Barbara R.;
Gibb, Gillian C.;
Penny, David

Publication type:

Opinion

Identifying Cliques of Convergent Characters: Concerted Evolution in the Cormorants and Shags.

Published in:

Systematic Biology, 2010, v. 59, n. 4, p. 433, doi. 10.1093/sysbio/syq023

By:

HOLLAND, BARBARA R.;
SPENCER, HAMISH G.;
WORTHY, TREVOR H.;
KENNEDY, MARTYN

Publication type:

Article

Phylogenetic Tree Reconstruction Accuracy and Model Fit when Proportions of Variable Sites Change across the Tree.

Published in:

Systematic Biology, 2010, v. 59, n. 3, p. 288, doi. 10.1093/sysbio/syq003

By:

GRIEVINK, LIAT SHAVIT;
PENNY, DAVID;
HENDY, MICHAEL D.;
HOLLAND, BARBARA R.

Publication type:

Article

Optimizing Automated AFLP Scoring Parameters to Improve Phylogenetic Resolution.

Published in:

Systematic Biology, 2008, v. 57, n. 3, p. 347, doi. 10.1080/10635150802044037

By:

Holland, Barbara R.;
Clarke, Andrew C.;
Meudt, Heidi M.

Publication type:

Article

Untangling Long Branches: Identifying Conflicting Phylogenetic Signals Using Spectral Analysis, Neighbor-Net, and Consensus Networks.

Published in:

Systematic Biology, 2005, v. 54, n. 4, p. 620, doi. 10.1080/106351591007462

By:

Kennedy, Martyn;
Holland, Barbara R.;
Gray, Russell D.;
Spencer, Hamish G.

Publication type:

Article

Reconstructing past changes in locus-specific recombination rates.

Published in:

BMC Genetics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2156-14-11

By:

Cox, Murray P.;
Holland, Barbara R.;
Wilkins, Matthew C.;
Schmid, Jan

Publication type:

Article

Comparison of Three Statistical Classification Techniques for Maser Identification.

Published in:

Publications of the Astronomical Society of Australia, 2016, v. 33, p. 1, doi. 10.1017/pasa.2016.13

By:

Manning, Ellen M.;
Holland, Barbara R.;
Ellingsen, Simon P.;
Breen, Shari L.;
Xi Chen;
Humphries, Melissa

Publication type:

Article

Faster exact maximum parsimony search with XMP.

Published in:

Bioinformatics, 2011, v. 27, n. 10, p. 1359, doi. 10.1093/bioinformatics/btr147

By:

White, W. Timothy J.;
Holland, Barbara R.

Publication type:

Article

The Problem of Rooting Rapid Radiations.

Published in:

Molecular Biology & Evolution, 2007, v. 24, n. 11, p. 2400, doi. 10.1093/molbev/msm178

By:

Shavit, Liat;
Penny, David;
Hendy, Michael D.;
Holland, Barbara R.

Publication type:

Article

Deciphering Past Human Population Movements in Oceania: Provably Optimal Trees of 127 mtDNA Genomes.

Published in:

Molecular Biology & Evolution, 2006, v. 23, n. 10, p. 1966, doi. 10.1093/molbev/msl063

By:

Pierson, Melanie J.;
Martinez-Arias, Rosa;
Holland, Barbara R.;
Gemmell, Neil J.;
Hurles, Matthew E.;
Penny, David

Publication type:

Article

Improved Consensus Network Techniques for Genome-Scale Phylogeny.

Published in:

Molecular Biology & Evolution, 2006, v. 23, n. 5, p. 848, doi. 10.1093/molbev/msj061

By:

Holland, Barbara R.;
Jermiin, Lars S.;
Moulton, Vincent

Publication type:

Article

Using Consensus Networks to Visualize Contradictory Evidence for Species Phylogeny.

Published in:

Molecular Biology & Evolution, 2004, v. 21, n. 7, p. 1459, doi. 10.1093/molbev/msh145

By:

Holland, Barbara R.;
Huber, Katharina T.;
Moulton, Vincent;
Lockhart, Peter J.

Publication type:

Article

Multiple Maxima of Likelihood in Phylogenetic Trees: An Analytic Approach.

Published in:

Molecular Biology & Evolution, 2000, v. 17, n. 10, p. 1529, doi. 10.1093/oxfordjournals.molbev.a026252

By:

Chor, Benny;
Hendy, Michael D.;
Holland, Barbara R.;
Penny, David

Publication type:

Article

hyperoverlap: Detecting biological overlap in n‐dimensional space.

Published in:

Methods in Ecology & Evolution, 2020, v. 11, n. 4, p. 513, doi. 10.1111/2041-210X.13363

By:

Brown, Matilda J. M.;
Holland, Barbara R.;
Jordan, Greg J.;
Cooper, Natalie

Publication type:

Article

Testing the Effect of Metabolic Rate on DNA Variability at the Intra-Specific Level.

Published in:

PLoS ONE, 2010, v. 5, n. 3, p. 1, doi. 10.1371/journal.pone.0009686

By:

McGaughran, Angela;
Holland, Barbara R.

Publication type:

Article

Impact of Genetic Background on Allele Selection in a Highly Mutable Candida albicans Gene, PNG2.

Published in:

PLoS ONE, 2010, v. 5, n. 3, p. 1, doi. 10.1371/journal.pone.0009614

By:

Ningxin Zhang;
Cannon, Richard D.;
Holland, Barbara R.;
Patchett, Mark L.;
Schmid, Jan

Publication type:

Article

The Emergence of Predators in Early Life: There was No Garden of Eden.

Published in:

PLoS ONE, 2009, v. 4, n. 6, p. 1, doi. 10.1371/journal.pone.0005507

By:

de Nooijer, Silvester;
Holland, Barbara R.;
Penny, David

Publication type:

Article

The Rise of Statistical Phylogenetics.

Published in:

Australian & New Zealand Journal of Statistics, 2013, v. 55, n. 3, p. 205, doi. 10.1111/anzs.12035

By:

Holland, Barbara R.

Publication type:

Article