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Shaping the Future
RESEARCH

Marc Suchard, M.D., Ph.D.

Contact Information:

Work Phone Number:

(310) 825-7442

Mailing Address:

Departments of Biomathematics, Biostatistics and Human Genetics
Los Angeles, CA 90095
UNITED STATES

Email Address:

msuchard@ucla.edu

Website:

Work.
Home Page.

Professor, Biostatistics

Biomathematics

Human Genetics

Member, Bioinformatics GPB Home Area

CTSI

Genetics & Genomics GPB Home Area

Faculty, BWF-IT-MD

Bioinformatics IDP

Center for Metabolic Disease Prevention


Detailed Biography:

Marc Suchard is helping to develop the nascent field of evolutionary medicine. This field harnesses the power of methods and theory from evolutionary biology to advance our understanding of human disease processes. Just as phylogenetic approaches have stimulated the field of evolution at large, they posses the potential to revolutionize evolutionary medicine, particularly in the study of rapidly evolving pathogens. To bridge the gap between phylogenetics and human-pathogen biology, Dr Suchard's interests focus on the development of novel reconstruction methods drawing heavily on statistical, mathematical and computation techniques. Some of his current projects involve jointly estimating alignments and phylogenies from molecular sequence data and mapping recombination hot-spots in the HIV genome.

Selected Publications:

Faria Nuno R, Rambaut Andrew, Suchard Marc A, Baele Guy, Bedford Trevor, Ward Melissa J, Tatem Andrew J, Sousa João D, Arinaminpathy Nimalan, Pépin Jacques, Posada David, Peeters Martine, Pybus Oliver G, Lemey Philippe HIV epidemiology. The early spread and epidemic ignition of HIV-1 in human populations. Science (New York, N.Y.). 2014; 346(6205): 56-61.
Strickland Samantha L, Rife Brittany D, Lamers Susanna L, Nolan David J, Veras Nazle M C, Prosperi Mattia C F, Burdo Tricia H, Autissier Patrick, Nowlin Brian, Goodenow Maureen M, Suchard Marc A, Williams Kenneth C, Salemi Marco Spatiotemporal Dynamics of SIV Brain Infection in CD8+ Lymphocyte-Depleted Rhesus Macaques with NeuroAIDS. The Journal of general virology. 2014; 346(6205): .
Bielejec Filip, Lemey Philippe, Baele Guy, Rambaut Andrew, Suchard Marc A Inferring heterogeneous evolutionary processes through time: from sequence substitution to phylogeography. Systematic biology. 2014; 63(4): 493-504.
Molak Martyna, Suchard Marc A, Ho Simon Y W, Beilman David W, Shapiro Beth Empirical calibrated radiocarbon sampler: a tool for incorporating radiocarbon-date and calibration error into Bayesian phylogenetic analyses of ancient DNA. Molecular ecology resources. 2014; 63(4): .
Jombart Thibaut, Aanensen David M, Baguelin Marc, Birrell Paul, Cauchemez Simon, Camacho Anton, Colijn Caroline, Collins Caitlin, Cori Anne, Didelot Xavier, Fraser Christophe, Frost Simon, Hens Niel, Hugues Joseph, Höhle Michael, Opatowski Lulla, Rambaut Andrew, Ratmann Oliver, Soubeyrand Samuel, Suchard Marc A, Wallinga Jacco, Ypma Rolf, Ferguson Neil OutbreakTools: a new platform for disease outbreak analysis using the R software. Epidemics. 2014; 7(4): 28-34.
Bielejec Filip, Lemey Philippe, Carvalho Luiz Max, Baele Guy, Rambaut Andrew, Suchard Marc A πBUSS: a parallel BEAST/BEAGLE utility for sequence simulation under complex evolutionary scenarios. BMC bioinformatics. 2014; 15(4): 133.
Nunes Marcio R T, Palacios Gustavo, Faria Nuno Rodrigues, Sousa Edivaldo Costa, Pantoja Jamilla A, Rodrigues Sueli G, Carvalho Valéria L, Medeiros Daniele B A, Savji Nazir, Baele Guy, Suchard Marc A, Lemey Philippe, Vasconcelos Pedro F C, Lipkin W Ian Air travel is associated with intracontinental spread of dengue virus serotypes 1-3 in Brazil. PLoS neglected tropical diseases. 2014; 8(4): e2769.
Bouckaert Remco, Heled Joseph, Kühnert Denise, Vaughan Tim, Wu Chieh-Hsi, Xie Dong, Suchard Marc A, Rambaut Andrew, Drummond Alexei J BEAST 2: a software platform for Bayesian evolutionary analysis. PLoS computational biology. 2014; 10(4): e1003537.
Crawford Forrest W, Minin Vladimir N, Suchard Marc A Estimation for general birth-death processes. Journal of the American Statistical Association. 2014; 109(506): 730-747.
Mittal Sushil, Madigan David, Burd Randall S, Suchard Marc A High-dimensional, massive sample-size Cox proportional hazards regression for survival analysis. Biostatistics (Oxford, England). 2014; 15(2): 207-21.
Vrancken Bram, Rambaut Andrew, Suchard Marc A, Drummond Alexei, Baele Guy, Derdelinckx Inge, Van Wijngaerden Eric, Vandamme Anne-Mieke, Van Laethem Kristel, Lemey Philippe The genealogical population dynamics of HIV-1 in a large transmission chain: bridging within and among host evolutionary rates. PLoS computational biology. 2014; 10(4): e1003505.
Nylinder Stephan, Lemey Philippe, De Bruyn Mark, Suchard Marc A, Pfeil Bernard E, Walsh Neville, Anderberg Arne A On the biogeography of Centipeda: a species-tree diffusion approach. Systematic biology. 2014; 63(2): 178-91.
Lemey Philippe, Rambaut Andrew, Bedford Trevor, Faria Nuno, Bielejec Filip, Baele Guy, Russell Colin A, Smith Derek J, Pybus Oliver G, Brockmann Dirk, Suchard Marc A Unifying viral genetics and human transportation data to predict the global transmission dynamics of human influenza H3N2. PLoS pathogens. 2014; 10(2): e1003932.
Schuemie Martijn J, Ryan Patrick B, Suchard Marc A, Shahn Zach, Madigan David Discussion: An estimate of the science-wise false discovery rate and application to the top medical literature. Biostatistics (Oxford, England). 2014; 15(1): 36-9; discussion 39-45.
Bedford Trevor, Suchard Marc A, Lemey Philippe, Dudas Gytis, Gregory Victoria, Hay Alan J, McCauley John W, Russell Colin A, Smith Derek J, Rambaut Andrew Integrating influenza antigenic dynamics with molecular evolution. eLife. 2014; 3(1): e01914.
Schuemie Martijn J, Ryan Patrick B, DuMouchel William, Suchard Marc A, Madigan David Interpreting observational studies: why empirical calibration is needed to correct p-values. Statistics in medicine. 2014; 33(2): 209-18.
Simpson Shawn E, Madigan David, Zorych Ivan, Schuemie Martijn J, Ryan Patrick B, Suchard Marc A Multiple self-controlled case series for large-scale longitudinal observational databases. Biometrics. 2013; 69(4): 893-902.
Shi Mang, Lemey Philippe, Singh Brar Manreetpal, Suchard Marc A, Murtaugh Michael P, Carman Susy, D'Allaire Sylvie, Delisle Benjamin, Lambert Marie-Ève, Gagnon Carl A, Ge Li, Qu Yihan, Yoo Dongwan, Holmes Edward C, Chi-Ching Leung Frederick The spread of type 2 Porcine Reproductive and Respiratory Syndrome Virus (PRRSV) in North America: a phylogeographic approach. Virology. 2013; 447(1-2): 146-54.
Ryan Patrick B, Stang Paul E, Overhage J Marc, Suchard Marc A, Hartzema Abraham G, DuMouchel William, Reich Christian G, Schuemie Martijn J, Madigan David A comparison of the empirical performance of methods for a risk identification system. Drug safety : an international journal of medical toxicology and drug experience. 2013; 36 Suppl 1(1-2): S143-58.
Suchard Marc A, Zorych Ivan, Simpson Shawn E, Schuemie Martijn J, Ryan Patrick B, Madigan David Empirical performance of the self-controlled case series design: lessons for developing a risk identification and analysis system. Drug safety : an international journal of medical toxicology and drug experience. 2013; 36 Suppl 1(1-2): S83-93.
Reich Christian G, Ryan Patrick B, Suchard Marc A The impact of drug and outcome prevalence on the feasibility and performance of analytical methods for a risk identification and analysis system. Drug safety : an international journal of medical toxicology and drug experience. 2013; 36 Suppl 1(1-2): S195-204.
Madigan David, Ryan Patrick B, Schuemie Martijn, Stang Paul E, Overhage J Marc, Hartzema Abraham G, Suchard Marc A, DuMouchel William, Berlin Jesse A Evaluating the impact of database heterogeneity on observational study results. American journal of epidemiology. 2013; 178(4): 645-51.
Gong Lizhi Ian, Suchard Marc A, Bloom Jesse D Stability-mediated epistasis constrains the evolution of an influenza protein. eLife. 2013; 2(4): e00631.
Crawford Forrest W, Suchard Marc A Diversity, disparity, and evolutionary rate estimation for unresolved Yule trees. Systematic biology. 2013; 62(3): 439-55.
Wu Chieh-Hsi, Suchard Marc A, Drummond Alexei J Bayesian selection of nucleotide substitution models and their site assignments. Molecular biology and evolution. 2013; 30(3): 669-88.
Cybis Gabriela B, Sinsheimer Janet S, Lemey Philippe, Suchard Marc A Graph hierarchies for phylogeography. Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 2013; 368(1614): 20120206.
Gill Mandev S, Lemey Philippe, Faria Nuno R, Rambaut Andrew, Shapiro Beth, Suchard Marc A Improving Bayesian population dynamics inference: a coalescent-based model for multiple loci. Molecular biology and evolution. 2013; 30(3): 713-24.
Faria Nuno Rodrigues, Suchard Marc A, Rambaut Andrew, Streicker Daniel G, Lemey Philippe Simultaneously reconstructing viral cross-species transmission history and identifying the underlying constraints. Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 2013; 368(1614): 20120196.
Baele Guy, Li Wai Lok Sibon, Drummond Alexei J, Suchard Marc A, Lemey Philippe Accurate model selection of relaxed molecular clocks in bayesian phylogenetics. Molecular biology and evolution. 2013; 30(2): 239-43.
Lemey Philippe, Minin Vladimir N, Bielejec Filip, Kosakovsky Pond Sergei L, Suchard Marc A A counting renaissance: combining stochastic mapping and empirical Bayes to quickly detect amino acid sites under positive selection. Bioinformatics (Oxford, England). 2012; 28(24): 3248-56.
Kemal Kimdar S, Ramirez Christina M, Burger Harold, Foley Brian, Mayers Douglas, Klimkait Thomas, Hamy François, Anastos Kathryn, Petrovic Katarina, Minin Vladimir N, Suchard Marc A, Weiser Barbara Recombination between variants from genital tract and plasma: evolution of multidrug-resistant HIV type 1. AIDS research and human retroviruses. 2012; 28(12): 1766-74.
Nunes Marcio Roberto Teixeira, Faria Nuno Rodrigues, Vasconcelos Helena Baldez, Medeiros Daniele Barbosa de Almeida, Silva de Lima Clayton Pereira, Carvalho Valéria Lima, Pinto da Silva Eliana Vieira, Cardoso Jedson Ferreira, Sousa Edivaldo Costa, Nunes Keley Nascimento Barbosa, Rodrigues Sueli Guerreiro, Abecasis Ana Barroso, Suchard Marc A, Lemey Philippe, Vasconcelos Pedro Fernando da Costa Phylogeography of dengue virus serotype 4, Brazil, 2010-2011. Emerging infectious diseases. 2012; 18(11): 1858-64.
Weinert Lucy A, Welch John J, Suchard Marc A, Lemey Philippe, Rambaut Andrew, Fitzgerald J Ross Molecular dating of human-to-bovid host jumps by Staphylococcus aureus reveals an association with the spread of domestication. Biology letters. 2012; 8(5): 829-32.
Baele Guy, Lemey Philippe, Bedford Trevor, Rambaut Andrew, Suchard Marc A, Alekseyenko Alexander V Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty. Molecular biology and evolution. 2012; 29(9): 2157-67.
Crawford Forrest W, Suchard Marc A Transition probabilities for general birth-death processes with applications in ecology, genetics, and evolution. Journal of mathematical biology. 2012; 65(3): 553-80.
Pybus Oliver G, Suchard Marc A, Lemey Philippe, Bernardin Flavien J, Rambaut Andrew, Crawford Forrest W, Gray Rebecca R, Arinaminpathy Nimalan, Stramer Susan L, Busch Michael P, Delwart Eric L Unifying the spatial epidemiology and molecular evolution of emerging epidemics. Proceedings of the National Academy of Sciences of the United States of America. 2012; 109(37): 15066-71.
Gong Yu-Nong, Chen Guang-Wu, Suchard Marc A A novel empirical mutual information approach to identify co-evolving amino acid positions of influenza A viruses. Computational biology and chemistry. 2012; 39(6097): 20-8.
Drummond Alexei J, Suchard Marc A, Xie Dong, Rambaut Andrew Bayesian phylogenetics with BEAUti and the BEAST 1.7. Molecular biology and evolution. 2012; 29(8): 1969-73.
Bouckaert Remco, Lemey Philippe, Dunn Michael, Greenhill Simon J, Alekseyenko Alexander V, Drummond Alexei J, Gray Russell D, Suchard Marc A, Atkinson Quentin D Mapping the origins and expansion of the Indo-European language family. Science (New York, N.Y.). 2012; 337(6097): 957-60.
Allicock Orchid M, Lemey Philippe, Tatem Andrew J, Pybus Oliver G, Bennett Shannon N, Mueller Brandi A, Suchard Marc A, Foster Jerome E, Rambaut Andrew, Carrington Christine V F Phylogeography and population dynamics of dengue viruses in the Americas. Molecular biology and evolution. 2012; 29(6): 1533-43.
Tom Jennifer A, Sinsheimer Janet S, Suchard Marc A Does history repeat itself? Wavelets and the phylodynamics of influenza A. Molecular biology and evolution. 2012; 29(5): 1367-77.
Ronquist Fredrik, Teslenko Maxim, van der Mark Paul, Ayres Daniel L, Darling Aaron, Höhna Sebastian, Larget Bret, Liu Liang, Suchard Marc A, Huelsenbeck John P MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Systematic biology. 2012; 61(3): 539-42.
Faria Nuno R, Hodges-Mameletzis Ioannis, Silva Joana C, Rodés Berta, Erasmus Smit, Paolucci Stefania, Ruelle Jean, Pieniazek Danuta, Taveira Nuno, Treviño Ana, Gonçalves Maria F, Jallow Sabelle, Xu Li, Camacho Ricardo J, Soriano Vincent, Goubau Patrick, de Sousa João D, Vandamme Anne-Mieke, Suchard Marc A, Lemey Philippe Phylogeographical footprint of colonial history in the global dispersal of human immunodeficiency virus type 2 group A. The Journal of general virology. 2012; 93(Pt 4): 889-99.
Faria Nuno R, Suchard Marc A, Abecasis Ana, Sousa João D, Ndembi Nicaise, Bonfim Idalina, Camacho Ricardo J, Vandamme Anne-Mieke, Lemey Philippe Phylodynamics of the HIV-1 CRF02_AG clade in Cameroon. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases. 2012; 12(2): 453-60.
Ayres Daniel L, Darling Aaron, Zwickl Derrick J, Beerli Peter, Holder Mark T, Lewis Paul O, Huelsenbeck John P, Ronquist Fredrik, Swofford David L, Cummings Michael P, Rambaut Andrew, Suchard Marc A BEAGLE: an application programming interface and high-performance computing library for statistical phylogenetics. Systematic biology. 2012; 61(1): 170-3.
Weiss Robert E, Jia Juan, Suchard Marc A A Bayesian model for the common effects of multiple predictors on mixed outcomes. Interface focus. 2011; 1(6): 886-94.
Lorenzen Eline D, Nogués-Bravo David, Orlando Ludovic, Weinstock Jaco, Binladen Jonas, Marske Katharine A, Ugan Andrew, Borregaard Michael K, Gilbert M Thomas P, Nielsen Rasmus, Ho Simon Y W, Goebel Ted, Graf Kelly E, Byers David, Stenderup Jesper T, Rasmussen Morten, Campos Paula F, Leonard Jennifer A, Koepfli Klaus-Peter, Froese Duane, Zazula Grant, Stafford Thomas W, Aaris-Sørensen Kim, Batra Persaram, Haywood Alan M, Singarayer Joy S, Valdes Paul J, Boeskorov Gennady, Burns James A, Davydov Sergey P, Haile James, Jenkins Dennis L, Kosintsev Pavel, Kuznetsova Tatyana, Lai Xulong, Martin Larry D, McDonald H Gregory, Mol Dick, Meldgaard Morten, Munch Kasper, Stephan Elisabeth, Sablin Mikhail, Sommer Robert S, Sipko Taras, Scott Eric, Suchard Marc A, Tikhonov Alexei, Willerslev Rane, Wayne Robert K, Cooper Alan, Hofreiter Michael, Sher Andrei, Shapiro Beth, Rahbek Carsten, Willerslev Eske Species-specific responses of Late Quaternary megafauna to climate and humans. Nature. 2011; 479(7373): 359-64.
Faria Nuno Rodrigues, Suchard Marc A, Rambaut Andrew, Lemey Philippe Toward a quantitative understanding of viral phylogeography. Current opinion in virology. 2011; 1(5): 423-9.
Bielejec Filip, Rambaut Andrew, Suchard Marc A, Lemey Philippe SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics. Bioinformatics (Oxford, England). 2011; 27(20): 2910-2.
Edwards Ceiridwen J, Suchard Marc A, Lemey Philippe, Welch John J, Barnes Ian, Fulton Tara L, Barnett Ross, O'Connell Tamsin C, Coxon Peter, Monaghan Nigel, Valdiosera Cristina E, Lorenzen Eline D, Willerslev Eske, Baryshnikov Gennady F, Rambaut Andrew, Thomas Mark G, Bradley Daniel G, Shapiro Beth Ancient hybridization and an Irish origin for the modern polar bear matriline. Current biology : CB. 2011; 21(15): 1251-8.
Nelson Martha I, Lemey Philippe, Tan Yi, Vincent Amy, Lam Tommy Tsan-Yuk, Detmer Susan, Viboud Cécile, Suchard Marc A, Rambaut Andrew, Holmes Edward C, Gramer Marie Spatial dynamics of human-origin H1 influenza A virus in North American swine. PLoS pathogens. 2011; 7(6): e1002077.
Edo-Matas Diana, Lemey Philippe, Tom Jennifer A, Serna-Bolea Cèlia, van den Blink Agnes E, van 't Wout Angélique B, Schuitemaker Hanneke, Suchard Marc A Impact of CCR5delta32 host genetic background and disease progression on HIV-1 intrahost evolutionary processes: efficient hypothesis testing through hierarchical phylogenetic models. Molecular biology and evolution. 2011; 28(5): 1605-16.
Gray Rebecca R, Tatem Andrew J, Johnson Judith A, Alekseyenko Alexander V, Pybus Oliver G, Suchard Marc A, Salemi Marco Testing spatiotemporal hypothesis of bacterial evolution using methicillin-resistant Staphylococcus aureus ST239 genome-wide data within a bayesian framework. Molecular biology and evolution. 2011; 28(5): 1593-603.
Huelsenbeck John P, Alfaro Michael E, Suchard Marc A Biologically inspired phylogenetic models strongly outperform the no common mechanism model. Systematic biology. 2011; 60(2): 225-32.
Shapiro Beth, Ho Simon Y W, Drummond Alexei J, Suchard Marc A, Pybus Oliver G, Rambaut Andrew A Bayesian phylogenetic method to estimate unknown sequence ages. Molecular biology and evolution. 2011; 28(2): 879-87.
Talbi Chiraz, Lemey Philippe, Suchard Marc A, Abdelatif Elbia, Elharrak Mehdi, Nourlil Jalal, Jalal Nourlil, Faouzi Abdellah, Echevarría Juan E, Vazquez Morón Sonia, Rambaut Andrew, Campiz Nicholas, Tatem Andrew J, Holmes Edward C, Bourhy Hervé Phylodynamics and human-mediated dispersal of a zoonotic virus. PLoS pathogens. 2010; 6(10): e1001166.
Bloomquist Erik W, Lemey Philippe, Suchard Marc A Three roads diverged? Routes to phylogeographic inference. Trends in ecology & evolution. 2010; 25(11): 626-32.
Auguste Albert J, Lemey Philippe, Pybus Oliver G, Suchard Marc A, Salas Rosa Alba, Adesiyun Abiodun A, Barrett Alan D, Tesh Robert B, Weaver Scott C, Carrington Christine V F Yellow fever virus maintenance in Trinidad and its dispersal throughout the Americas. Journal of virology. 2010; 84(19): 9967-77.
Drummond Alexei J, Suchard Marc A Bayesian random local clocks, or one rate to rule them all. BMC biology. 2010; 8(9): 114.
Firth Cadhla, Kitchen Andrew, Shapiro Beth, Suchard Marc A, Holmes Edward C, Rambaut Andrew Using time-structured data to estimate evolutionary rates of double-stranded DNA viruses. Molecular biology and evolution. 2010; 27(9): 2038-51.
Shi Binshan, Kitchen Christina, Weiser Barbara, Mayers Douglas, Foley Brian, Kemal Kimdar, Anastos Kathryn, Suchard Marc, Parker Monica, Brunner Cheryl, Burger Harold Evolution and recombination of genes encoding HIV-1 drug resistance and tropism during antiretroviral therapy. Virology. 2010; 404(1): 5-20.
Zhou Hua, Lange Kenneth, Suchard Marc A Graphics Processing Units and High-Dimensional Optimization. Statistical science : a review journal of the Institute of Mathematical Statistics. 2010; 25(3): 311-324.
Lemey Philippe, Rambaut Andrew, Welch John J, Suchard Marc A Phylogeography takes a relaxed random walk in continuous space and time. Molecular biology and evolution. 2010; 27(8): 1877-85.
Suchard Marc A, Wang Quanli, Chan Cliburn, Frelinger Jacob, Cron Andrew, West Mike Understanding GPU Programming for Statistical Computation: Studies in Massively Parallel Massive Mixtures. Journal of computational and graphical statistics : a joint publication of American Statistical Association, Institute of Mathematical Statistics, Interface Foundation of North America. 2010; 19(2): 419-438.
Campos Paula F, Willerslev Eske, Sher Andrei, Orlando Ludovic, Axelsson Erik, Tikhonov Alexei, Aaris-Sørensen Kim, Greenwood Alex D, Kahlke Ralf-Dietrich, Kosintsev Pavel, Krakhmalnaya Tatiana, Kuznetsova Tatyana, Lemey Philippe, MacPhee Ross, Norris Christopher A, Shepherd Kieran, Suchard Marc A, Zazula Grant D, Shapiro Beth, Gilbert M Thomas P Ancient DNA analyses exclude humans as the driving force behind late Pleistocene musk ox (Ovibos moschatus) population dynamics. Proceedings of the National Academy of Sciences of the United States of America. 2010; 107(12): 5675-80.
Bloomquist Erik W, Suchard Marc A Unifying vertical and nonvertical evolution: a stochastic ARG-based framework. Systematic biology. 2010; 59(1): 27-41.
Liang Li-Jung, Weiss Robert E, Redelings Benjamin, Suchard Marc A Improving phylogenetic analyses by incorporating additional information from genetic sequence databases. Bioinformatics (Oxford, England). 2009; 25(19): 2530-6.
Lemey Philippe, Suchard Marc, Rambaut Andrew Reconstructing the initial global spread of a human influenza pandemic: A Bayesian spatial-temporal model for the global spread of H1N1pdm. PLoS currents. 2009; 1(19): RRN1031.
Lemey Philippe, Rambaut Andrew, Drummond Alexei J, Suchard Marc A Bayesian phylogeography finds its roots. PLoS computational biology. 2009; 5(9): e1000520.
Suchard Marc A, Rambaut Andrew Many-core algorithms for statistical phylogenetics. Bioinformatics (Oxford, England). 2009; 25(11): 1370-6.
O'Brien John D, Minin Vladimir N, Suchard Marc A Learning to count: robust estimates for labeled distances between molecular sequences. Molecular biology and evolution. 2009; 26(4): 801-14.
McBride Alan J A, Cerqueira Gustavo M, Suchard Marc A, Moreira Angela N, Zuerner Richard L, Reis Mitermayer G, Haake David A, Ko Albert I, Dellagostin Odir A Genetic diversity of the Leptospiral immunoglobulin-like (Lig) genes in pathogenic Leptospira spp. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases. 2009; 9(2): 196-205.
Bloomquist Erik W, Dorman Karin S, Suchard Marc A StepBrothers: inferring partially shared ancestries among recombinant viral sequences. Biostatistics (Oxford, England). 2009; 10(1): 106-20.
Kitchen Christina M R, Kroll Jing, Kuritzkes Daniel R, Bloomquist Erik, Deeks Steven G, Suchard Marc A Two-way Bayesian hierarchical phylogenetic models: An application to the co-evolution of gp120 and gp41 during and after enfuvirtide treatment. Computational statistics & data analysis. 2009; 53(3): 766-775.
Minin Vladimir N, Suchard Marc A Fast, accurate and simulation-free stochastic mapping. Philosophical transactions of the Royal Society of London. Series B, Biological sciences. 2008; 363(1512): 3985-95.
Drummond Alexei J, Suchard Marc A Fully Bayesian tests of neutrality using genealogical summary statistics. BMC genetics. 2008; 9(1512): 68.
Alekseyenko Alexander V, Lee Christopher J, Suchard Marc A Wagner and Dollo: a stochastic duet by composing two parsimonious solos. Systematic biology. 2008; 57(5): 772-84.
O'Brien John D, She Zhen-Su, Suchard Marc A Dating the time of viral subtype divergence. BMC evolutionary biology. 2008; 8(7): 172.
Minin Vladimir N, Bloomquist Erik W, Suchard Marc A Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics. Molecular biology and evolution. 2008; 25(7): 1459-71.
Seeram Navindra P, Zhang Yanjun, McKeever Rodney, Henning Susanne M, Lee Ru-po, Suchard Marc A, Li Zhaoping, Chen Steve, Thames Gail, Zerlin Alona, Nguyen Martha, Wang David, Dreher Mark, Heber David Pomegranate juice and extracts provide similar levels of plasma and urinary ellagitannin metabolites in human subjects. Journal of medicinal food. 2008; 11(2): 390-4.
Minin Vladimir N, Suchard Marc A Counting labeled transitions in continuous-time Markov models of evolution. Journal of mathematical biology. 2008; 56(3): 391-412.
Wong Karen M, Suchard Marc A, Huelsenbeck John P Alignment uncertainty and genomic analysis. Science (New York, N.Y.). 2008; 319(5862): 473-6.
Stanczak Christopher M, Chen Zugen, Nelson Stanley F, Suchard Marc, McCabe Edward R B, McGhee Sean Representational oligonucleotide microarray analysis (ROMA) and comparison of binning and change-point methods of analysis: application to detection of del22q11.2 (DiGeorge) syndrome. Human mutation. 2008; 29(1): 176-81.
Huelsenbeck John P, Suchard Marc A A nonparametric method for accommodating and testing across-site rate variation. Systematic biology. 2007; 56(6): 975-87.
Stevenson Brian, Choy Henry A, Pinne Marija, Rotondi Matthew L, Miller M Clarke, Demoll Edward, Kraiczy Peter, Cooley Anne E, Creamer Trevor P, Suchard Marc A, Brissette Catherine A, Verma Ashutosh, Haake David A Leptospira interrogans endostatin-like outer membrane proteins bind host fibronectin, laminin and regulators of complement. PloS one. 2007; 2(11): e1188.
Su Feng, Lang Jennifer, Kumar Ashutosh, Ng Carey, Hsieh Brian, Suchard Marc A, Reddy Srinivasa T, Farias-Eisner Robin Validation of candidate serum ovarian cancer biomarkers for early detection. Biomarker insights. 2007; 2(11): 369-75.
Seeram Navindra P, Aronson William J, Zhang Yanjun, Henning Susanne M, Moro Aune, Lee Ru-Po, Sartippour Maryam, Harris Diane M, Rettig Matthew, Suchard Marc A, Pantuck Allan J, Belldegrun Arie, Heber David Pomegranate ellagitannin-derived metabolites inhibit prostate cancer growth and localize to the mouse prostate gland. Journal of agricultural and food chemistry. 2007; 55(19): 7732-7.
Liao Joseph C, Mastali Mitra, Li Yang, Gau Vincent, Suchard Marc A, Babbitt Jane, Gornbein Jeffrey, Landaw Elliot M, McCabe Edward R B, Churchill Bernard M, Haake David A Development of an advanced electrochemical DNA biosensor for bacterial pathogen detection. The Journal of molecular diagnostics : JMD. 2007; 9(2): 158-68.
Redelings Benjamin D, Suchard Marc A Incorporating indel information into phylogeny estimation for rapidly emerging pathogens. BMC evolutionary biology. 2007; 7(2): 40.
Minin Vladimir N, Dorman Karin S, Fang Fang, Suchard Marc A Phylogenetic mapping of recombination hotspots in human immunodeficiency virus via spatially smoothed change-point processes. Genetics. 2007; 175(4): 1773-85.
Guo Hua, Weiss Robert E, Gu Xun, Suchard Marc A Time squared: repeated measures on phylogenies. Molecular biology and evolution. 2007; 24(2): 352-62.
Fang Fang, Ding Jing, Minin Vladimir N, Suchard Marc A, Dorman Karin S cBrother: relaxing parental tree assumptions for Bayesian recombination detection. Bioinformatics (Oxford, England). 2007; 23(4): 507-8.
Kitchen Christina M R, Lu Jing, Suchard Marc A, Hoh Rebecca, Martin Jeffrey N, Kuritzkes Daniel R, Deeks Steven G Continued evolution in gp41 after interruption of enfuvirtide in subjects with advanced HIV type 1 disease. AIDS research and human retroviruses. 2006; 22(12): 1260-6.
Seeram Navindra P, Henning Susanne M, Zhang Yanjun, Suchard Marc, Li Zhaoping, Heber David Pomegranate juice ellagitannin metabolites are present in human plasma and some persist in urine for up to 48 hours. The Journal of nutrition. 2006; 136(10): 2481-5.
Suchard Marc A, Redelings Benjamin D BAli-Phy: simultaneous Bayesian inference of alignment and phylogeny. Bioinformatics (Oxford, England). 2006; 22(16): 2047-8.
Milane Michael S, Suchard Marc A, Wong Ma-Li, Licinio Julio Modeling of the temporal patterns of fluoxetine prescriptions and suicide rates in the United States. PLoS medicine. 2006; 3(6): e190.
Liao Joseph C, Mastali Mitra, Gau Vincent, Suchard Marc A, Møller Annette K, Bruckner David A, Babbitt Jane T, Li Yang, Gornbein Jeffrey, Landaw Elliot M, McCabe Edward R B, Churchill Bernard M, Haake David A Use of electrochemical DNA biosensors for rapid molecular identification of uropathogens in clinical urine specimens. Journal of clinical microbiology. 2006; 44(2): 561-70.
Suchard Marc A, Weiss Robert E, Sinsheimer Janet S Models for estimating bayes factors with applications to phylogeny and tests of monophyly. Biometrics. 2005; 61(3): 665-73.
Minin Vladimir N, Dorman Karin S, Fang Fang, Suchard Marc A Dual multiple change-point model leads to more accurate recombination detection. Bioinformatics (Oxford, England). 2005; 21(13): 3034-42.
Redelings Benjamin D, Suchard Marc A Joint Bayesian estimation of alignment and phylogeny. Systematic biology. 2005; 54(3): 401-18.
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