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Refereed Publications and Conference Proceedings:
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12.
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Chattopadhyay S, Weissman SJ, Minin VN, Russo TA, Dykhuizen DE, Sokurenko EV.
High frequency of hotspot mutations in core genes of Escherichia coli due to short-term positive
selection, Proceedings of the National Academy of Sciences USA, 106:12412-12417, 2009.
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11.
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O'Brien JD*, Minin VN*, and Suchard MA.
Learning to count: robust estimates for labeled distances between
molecular sequences,
Molecular Biology and Evolution, 26:801-814, 2009.
* - joint first authors
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10.
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Minin VN and Suchard MA.
Fast, accurate and simulation-free stochastic mapping,
Philosophical Transactions of the Royal Society B: Biological Sciences,
363:3985-3995, 2008.
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9.
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Minin VN, Bloomquist EW, and Suchard MA.
Smooth skyride through a rough skyline: Bayesian coalescent-based
inference of population dynamics,
Molecular Biology and Evolution, 25:1459-1471, 2008.
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8.
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Minin VN and Suchard MA.
Counting labeled transitions in continuous-time
Markov models of evolution,
Journal of Mathematical Biology, 56:391-412, 2008.
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7.
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Rajaram ML, Minin VN, Suchard MA, and Dorman KS.
Hot and cold: spatial fluctuation in HIV-1 recombination rates,
Proceedings of the 7th IEEE International Conference on Bioinformatics and
Bioengineering, 707-714, 2007.
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6.
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Minin VN, Dorman KS, Fang F, and Suchard MA.
Phylogenetic mapping of recombination hot-spots in HIV via
spatially smoothed change-point processes,
Genetics, 175:1773-1785, 2007.
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5.
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Fang F, Ding J, Minin VN, Suchard MA, and Dorman KS.
cBrother: Relaxing parental tree assumptions for
Bayesian recombination detection,
Bioinformatics, 23:507-508, 2007.
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cBrother
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4.
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Minin VN, Dorman KS, Fang F, and Suchard MA.
Dual multiple change-point model leads to more accurate recombination
detection,
Bioinformatics, 21:3034-3042, 2005.
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3.
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Abdo Z, Minin VN, Joyce P, and Sullivan J.
Accounting for uncertainty in the tree topology has
little effect on the
decision theoretic approach to model
selection in phylogeny estimation,
Molecular Biology and Evolution, 22:691-703, 2004.
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2.
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Liu X, Minin V, Huang Y, Selingson D, and Horvath S.
Statistical Methods for Analyzing Tissue Microarray Data,
Journal of Biopharmaceutical Statistics, 14:671-685, 2004.
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1.
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Minin V, Abdo Z, Joyce P, and Sullivan J.
Performance-based selection of likelihood models for phylogeny
estimation, Systematic Biology, 52:674-683, 2003.
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DTModSel
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Unrefereed Publications:
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2.
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Fang F, Minin VN, Suchard MA, Dorman KS.
A Bayesian phylogenetic model for counting
recombination events,
2005 Proceedings of the American Statistical Association,
Bayesian Statistical Science Section, [CD-ROM].
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1.
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Minin VN, Dorman KS, Suchard MA.
Bayesian recombination identification: new models
for incorporating prior information,
2004 Proceedings of the American Statistical Association,
Bayesian Statistical Science Section, [CD-ROM].
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Conference Presentations and Posters:
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Applications of Markov chain-induced counting processes in evolutionary biology and
statistics
contributed talk at the
33rd Conference on Stochastic Processes and
Their Applications, Berlin, Germany
July 2009.
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Bayesian coalescent-based inference of population dynamics
invited talk at the Young Investigators in
Population Genetics Workshop,
University of Arizona, Tucson, AZ
October 2008
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Computationally efficient posterior predictive mapping of evolutionary histories
makes estimation of selection forces possible in large scale studies of viral evolution
Savage session talk at the 9th World Meeting of the International Society for Bayesian Analysis,
Hamilton Island, Australia
July 2008
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Bayesian phylogenetic mapping of recombinaton hot-spots
contributed talk at the Bayesian Phylogeny Workshop, Budapest, Hungary
June 2008
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Robust estimation of genetic distances with applications to the convergent evolution problem
invited talk at the Phylogenetics Workshop, held prior to the
HIV Dynamics and Evolution Meeting, Santa Fe, NM
April 2008
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Simulation-free algorithms for mapping evolutionary innovations onto phylogenies
invited talk at the
Microsoft Research Workshop on Computational Aspects of Biological Information,
Redmond, WA
December 2007
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Coalescent-based inference of population dynamics with Gaussian Markov random field
temporal smoothing
contributed talk at the
Joint Statistical Meeting, Salt Lake City, UT
August 2007
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Zooming into evolution with Markov chain
induced counting processes
contributed talk at the
Joint Statistical Meetings, Seattle, WA
August 2006
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Testing the presence of recombination
hot-spots in the HIV genome and their association with
local sequence properties
poster, presented at the
International Biometrics Conference, Montreal, Canada
July, 2006
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Investigating an evolutionary
footprint of recombination hot-spots in the HIV genome
contributed talk at SMBE Annual Meeting, Genomes,
Evolution, and Bioinformatics, Tempe, AZ
May, 2006
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Mapping HIV break-point hot-spots with
phylogenetic recombination detection and spatial smoothing
poster, presented at the
Case Studies in Bayesian Statistics Workshop,
Pittsburgh, PA
September, 2005
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Mapping recombination hot-spots
onto Gaussian Markov random fields
poster, presented at the Conference on Intelligent Systems for
Molecular Biology,
Detroit, MI
June 2005
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Bayesian recombination identification: new models
and better ways of incorporating prior information
contributed talk at Joint Statistical Meeting,
Toronto, Canada
August 2004
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Dual multiple change-point model leads to more accurate
recombination detection
poster, presented at the
Conference on Research in Computational Molecular
Biology, San Diego, CA
March 2004
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