Departments of Biomathematics, Biostatistics and Human Genetics
Los Angeles, CA 90095
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.
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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
ÏBUSS: 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-Ãve, 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, EchevarrÃa 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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