Marc Adam Suchard

Title(s)Professor, Human Genetics
SchoolMedicine
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    Other Positions
    Title(s)Professor, Computational Medicine


    Collapse Biography 
    Collapse Education and Training
    University of California, Los AngelesPhD2002Biomathematics
    University of California, Los AngelesMD2004

    Collapse Overview 

    Collapse Research 
    Collapse Research Activities and Funding
    Statistical innovation to integrate sequences and phenotypes for scalable phylodynamic inference
    NIH R01AI153044Apr 9, 2021 - Mar 31, 2025
    Role: Principal Investigator

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    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. The genomic evolutionary dynamics and global circulation patterns of respiratory syncytial virus. Nat Commun. 2024 Apr 10; 15(1):3083. Langedijk AC, Vrancken B, Lebbink RJ, Wilkins D, Kelly EJ, Baraldi E, Mascareñas de Los Santos AH, Danilenko DM, Choi EH, Palomino MA, Chi H, Keller C, Cohen R, Papenburg J, Pernica J, Greenough A, Richmond P, Martinón-Torres F, Heikkinen T, Stein RT, Hosoya M, Nunes MC, Verwey C, Evers A, Kragten-Tabatabaie L, Suchard MA, Kosakovsky Pond SL, Poletto C, Colizza V, Lemey P, Bont LJ, INFORM-RSV Study Group. PMID: 38600104; PMCID: PMC11006891.
      View in: PubMed   Mentions:
    2. Scalable gradients enable Hamiltonian Monte Carlo sampling for phylodynamic inference under episodic birth-death-sampling models. PLoS Comput Biol. 2024 Mar 29; 20(3):e1011640. Shao Y, Magee AF, Vasylyeva TI, Suchard MA. PMID: 38551979.
      View in: PubMed   Mentions:    Fields:    
    3. Similar risk of kidney failure among patients with blinding diseases who receive ranibizumab, aflibercept, and bevacizumab: an OHDSI Network Study. Ophthalmol Retina. 2024 Mar 20. Cai CX, Nishimura A, Bowring MG, Westlund E, Tran D, Ng JH, Nagy P, Cook M, McLeggon JA, DuVall SL, Matheny ME, Golozar A, Ostropolets A, Minty E, Desai P, Bu F, Toy B, Hribar M, Falconer T, Zhang L, Lawrence-Archer L, Boland MV, Goetz K, Hall N, Shoaibi A, Reps J, Sena AG, Blacketer C, Swerdel J, Jhaveri KD, Lee E, Gilbert Z, Zeger SL, Crews DC, Suchard MA, Hripcsak G, Ryan PB. PMID: 38519026.
      View in: PubMed   Mentions:    Fields:    
    4. Comparative safety and effectiveness of angiotensin converting enzyme inhibitors and thiazides and thiazide-like diuretics under strict monotherapy. J Clin Hypertens (Greenwich). 2024 Mar 19. Anand TV, Bu F, Schuemie MJ, Suchard MA, Hripcsak G. PMID: 38501749.
      View in: PubMed   Mentions:    Fields:    
    5. Integrating dynamical modeling and phylogeographic inference to characterize global influenza circulation. medRxiv. 2024 Mar 15. Parino F, Gustani-Buss E, Bedford T, Suchard MA, Trovão NS, Rambaut A, Colizza V, Poletto C, Lemey P. PMID: 38559244; PMCID: PMC10980132.
      View in: PubMed   Mentions:
    6. Authors' Response to Huang et al.'s Comment on "Serially Combining Epidemiological Designs Does Not Improve Overall Signal Detection in Vaccine Safety Surveillance". Drug Saf. 2024 Mar 05. Bu F, Arshad F, Hripcsak G, Ryan PB, Schuemie MJ, Suchard MA. PMID: 38441750.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    7. Dispersal history of SARS-CoV-2 in Galicia, Spain. medRxiv. 2024 Feb 28. Gallego-García P, Estévez-Gómez N, De Chiara L, Alvariño P, Juiz-González PM, Torres-Beceiro I, Poza M, Vallejo JA, Rumbo-Feal S, Conde-Pérez K, Aja-Macaya P, Ladra S, Moreno-Flores A, Gude-González MJ, Coira A, Aguilera A, Costa-Alcalde JJ, Trastoy R, Barbeito-Castiñeiras G, García-Souto D, Tubio JMC, Trigo-Daporta M, Camacho-Zamora P, Costa JG, González-Domínguez M, Canoura-Fernández L, Glez-Peña D, Pérez-Castro S, Cabrera JJ, Daviña-Núñez C, Godoy-Diz M, Treinta-Álvarez AB, Veiga MI, Sousa JC, Osório NS, Comas I, González-Candelas F, Hong SL, Bollen N, Dellicour S, Baele G, Suchard MA, Lemey P, Agulla A, Bou G, Alonso-García P, Pérez-Del-Molino ML, García-Campello M, Paz-Vidal I, Regueiro B, Posada D. PMID: 38463998; PMCID: PMC10925372.
      View in: PubMed   Mentions:
    8. Comparative Effectiveness of Second-line Antihyperglycemic Agents for Cardiovascular Outcomes: A Large-scale, Multinational, Federated Analysis of the LEGEND-T2DM Study. medRxiv. 2024 Feb 08. Khera R, Aminorroaya A, Dhingra LS, Thangaraj PM, Camargos AP, Bu F, Ding X, Nishimura A, Anand TV, Arshad F, Blacketer C, Chai Y, Chattopadhyay S, Cook M, Dorr DA, Duarte-Salles T, DuVall SL, Falconer T, French TE, Hanchrow EE, Kaur G, Lau WC, Li J, Li K, Liu Y, Lu Y, Man KK, Matheny ME, Mathioudakis N, McLeggon JA, McLemore MF, Minty E, Morales DR, Nagy P, Ostropolets A, Pistillo A, Phan TP, Pratt N, Reyes C, Richter L, Ross J, Ruan E, Seager SL, Simon KR, Viernes B, Yang J, Yin C, You SC, Zhou JJ, Ryan PB, Schuemie MJ, Krumholz HM, Hripcsak G, Suchard MA. PMID: 38370787; PMCID: PMC10871374.
      View in: PubMed   Mentions:
    9. Many-core algorithms for high-dimensional gradients on phylogenetic trees. Bioinformatics. 2024 02 01; 40(2). Gangavarapu K, Ji X, Baele G, Fourment M, Lemey P, Matsen FA, Suchard MA. PMID: 38243701; PMCID: PMC10868298.
      View in: PubMed   Mentions:    Fields:    
    10. Health-Analytics Data to Evidence Suite (HADES): Open-Source Software for Observational Research. Stud Health Technol Inform. 2024 Jan 25; 310:966-970. Schuemie M, Reps J, Black A, Defalco F, Evans L, Fridgeirsson E, Gilbert JP, Knoll C, Lavallee M, Rao GA, Rijnbeek P, Sadowski K, Sena A, Swerdel J, Williams RD, Suchard M. PMID: 38269952; PMCID: PMC10868467.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    11. On the surprising effectiveness of a simple matrix exponential derivative approximation, with application to global SARS-CoV-2. Proc Natl Acad Sci U S A. 2024 Jan 16; 121(3):e2318989121. Didier G, Glatt-Holtz NE, Holbrook AJ, Magee AF, Suchard MA. PMID: 38215186; PMCID: PMC10801879.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    12. Genomic surveillance reveals dynamic shifts in the connectivity of COVID-19 epidemics. Cell. 2023 12 21; 186(26):5690-5704.e20. Matteson NL, Hassler GW, Kurzban E, Schwab MA, Perkins SA, Gangavarapu K, Levy JI, Parker E, Pride D, Hakim A, De Hoff P, Cheung W, Castro-Martinez A, Rivera A, Veder A, Rivera A, Wauer C, Holmes J, Wilson J, Ngo SN, Plascencia A, Lawrence ES, Smoot EW, Eisner ER, Tsai R, Chacón M, Baer NA, Seaver P, Salido RA, Aigner S, Ngo TT, Barber T, Ostrander T, Fielding-Miller R, Simmons EH, Zazueta OE, Serafin-Higuera I, Sanchez-Alavez M, Moreno-Camacho JL, García-Gil A, Murphy Schafer AR, McDonald E, Corrigan J, Malone JD, Stous S, Shah S, Moshiri N, Weiss A, Anderson C, Aceves CM, Spencer EG, Hufbauer EC, Lee JJ, King AJ, Ramesh KS, Nguyen KN, Saucedo K, Robles-Sikisaka R, Fisch KM, Gonias SL, Birmingham A, McDonald D, Karthikeyan S, Martin NK, Schooley RT, Negrete AJ, Reyna HJ, Chavez JR, Garcia ML, Cornejo-Bravo JM, Becker D, Isaksson M, Washington NL, Lee W, Garfein RS, Luna-Ruiz Esparza MA, Alcántar-Fernández J, Henson B, Jepsen K, Olivares-Flores B, Barrera-Badillo G, Lopez-Martínez I, Ramírez-González JE, Flores-León R, Kingsmore SF, Sanders A, Pradenas A, White B, Matthews G, Hale M, McLawhon RW, Reed SL, Winbush T, McHardy IH, Fielding RA, Nicholson L, Quigley MM, Harding A, Mendoza A, Bakhtar O, Browne SH, Olivas Flores J, Rincon Rodríguez DG, Gonzalez Ibarra M, Robles Ibarra LC, Arellano Vera BJ, Gonzalez Garcia J, Harvey-Vera A, Knight R, Laurent LC, Yeo GW, Wertheim JO, Ji X, Worobey M, Suchard MA, Andersen KG, Campos-Romero A, Wohl S, Zeller M. PMID: 38101407; PMCID: PMC10795731.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCellsPHPublic Health
    13. Bayesian safety surveillance with adaptive bias correction. Stat Med. 2024 01 30; 43(2):395-418. Bu F, Schuemie MJ, Nishimura A, Smith LH, Kostka K, Falconer T, McLeggon JA, Ryan PB, Hripcsak G, Suchard MA. PMID: 38010062.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    14. An explainable machine learning-based phenomapping strategy for adaptive predictive enrichment in randomized clinical trials. NPJ Digit Med. 2023 Nov 25; 6(1):217. Oikonomou EK, Thangaraj PM, Bhatt DL, Ross JS, Young LH, Krumholz HM, Suchard MA, Khera R. PMID: 38001154; PMCID: PMC10673945.
      View in: PubMed   Mentions: 1  
    15. Evaluating the impact of alternative phenotype definitions on incidence rates across a global data network. JAMIA Open. 2023 Dec; 6(4):ooad096. Makadia R, Shoaibi A, Rao GA, Ostropolets A, Rijnbeek PR, Voss EA, Duarte-Salles T, Ramírez-Anguita JM, Mayer MA, Maljkovic F, Denaxas S, Nyberg F, Papez V, Sena AG, Alshammari TM, Lai LYH, Haynes K, Suchard MA, Hripcsak G, Ryan PB. PMID: 38028730; PMCID: PMC10662662.
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    16. Shrinkage-based Random Local Clocks with Scalable Inference. Mol Biol Evol. 2023 Nov 03; 40(11). Fisher AA, Ji X, Nishimura A, Baele G, Lemey P, Suchard MA. PMID: 37950885; PMCID: PMC10665039.
      View in: PubMed   Mentions: 1     Fields:    Translation:Animals
    17. APOBEC3 deaminase editing in mpox virus as evidence for sustained human transmission since at least 2016. Science. 2023 11 03; 382(6670):595-600. O'Toole Á, Neher RA, Ndodo N, Borges V, Gannon B, Gomes JP, Groves N, King DJ, Maloney D, Lemey P, Lewandowski K, Loman N, Myers R, Omah IF, Suchard MA, Worobey M, Chand M, Ihekweazu C, Ulaeto D, Adetifa I, Rambaut A. PMID: 37917680; PMCID: PMC10880385.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    18. Scalable gradients enable Hamiltonian Monte Carlo sampling for phylodynamic inference under episodic birth-death-sampling models. bioRxiv. 2023 Nov 02. Shao Y, Magee AF, Vasylyeva TI, Suchard MA. PMID: 37961423; PMCID: PMC10634968.
      View in: PubMed   Mentions:
    19. An explainable machine learning-based phenomapping strategy for adaptive predictive enrichment in randomized controlled trials. medRxiv. 2023 Nov 01. Oikonomou EK, Thangaraj PM, Bhatt DL, Ross JS, Young LH, Krumholz HM, Suchard MA, Khera R. PMID: 37961715; PMCID: PMC10635225.
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    20. Scalable Bayesian Divergence Time Estimation With Ratio Transformations. Syst Biol. 2023 11 01; 72(5):1136-1153. Ji X, Fisher AA, Su S, Thorne JL, Potter B, Lemey P, Baele G, Suchard MA. PMID: 37458991; PMCID: PMC10636426.
      View in: PubMed   Mentions: 1     Fields:    
    21. Dispersal history and bidirectional human-fish host switching of invasive, hypervirulent Streptococcus agalactiae sequence type 283. PLOS Glob Public Health. 2023; 3(10):e0002454. Schar D, Zhang Z, Pires J, Vrancken B, Suchard MA, Lemey P, Ip M, Gilbert M, Van Boeckel T, Dellicour S. PMID: 37856430; PMCID: PMC10586614.
      View in: PubMed   Mentions: 1  
    22. Multinational patterns of second line antihyperglycaemic drug initiation across cardiovascular risk groups: federated pharmacoepidemiological evaluation in LEGEND-T2DM. BMJ Med. 2023; 2(1):e000651. Khera R, Dhingra LS, Aminorroaya A, Li K, Zhou JJ, Arshad F, Blacketer C, Bowring MG, Bu F, Cook M, Dorr DA, Duarte-Salles T, DuVall SL, Falconer T, French TE, Hanchrow EE, Horban S, Lau WC, Li J, Liu Y, Lu Y, Man KK, Matheny ME, Mathioudakis N, McLemore MF, Minty E, Morales DR, Nagy P, Nishimura A, Ostropolets A, Pistillo A, Posada JD, Pratt N, Reyes C, Ross JS, Seager S, Shah N, Simon K, Wan EY, Yang J, Yin C, You SC, Schuemie MJ, Ryan PB, Hripcsak G, Krumholz H, Suchard MA. PMID: 37829182; PMCID: PMC10565313.
      View in: PubMed   Mentions: 2  
    23. Random-effects substitution models for phylogenetics via scalable gradient approximations. ArXiv. 2023 Sep 25. Magee AF, Holbrook AJ, Pekar JE, Caviedes-Solis IW, Iv FAM, Baele G, Wertheim JO, Ji X, Lemey P, Suchard MA. PMID: 36994154; PMCID: PMC10055484.
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    24. Genetic tracing of market wildlife and viruses at the epicenter of the COVID-19 pandemic. bioRxiv. 2023 Sep 14. Crits-Christoph A, Levy JI, Pekar JE, Goldstein SA, Singh R, Hensel Z, Gangavarapu K, Rogers MB, Moshiri N, Garry RF, Holmes EC, Koopmans MPG, Lemey P, Popescu S, Rambaut A, Robertson DL, Suchard MA, Wertheim JO, Rasmussen AL, Andersen KG, Worobey M, Débarre F. PMID: 37745602; PMCID: PMC10515900.
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    25. Ranitidine Use and Incident Cancer in a Multinational Cohort. JAMA Netw Open. 2023 09 05; 6(9):e2333495. You SC, Seo SI, Falconer T, Yanover C, Duarte-Salles T, Seager S, Posada JD, Shah NH, Nguyen PA, Kim Y, Hsu JC, Van Zandt M, Hsu MH, Lee HL, Ko H, Shin WG, Pratt N, Park RW, Reich CG, Suchard MA, Hripcsak G, Park CH, Prieto-Alhambra D. PMID: 37725377; PMCID: PMC10509724.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    26. Accelerated evolution of SARS-CoV-2 in free-ranging white-tailed deer. Nat Commun. 2023 08 28; 14(1):5105. McBride DS, Garushyants SK, Franks J, Magee AF, Overend SH, Huey D, Williams AM, Faith SA, Kandeil A, Trifkovic S, Miller L, Jeevan T, Patel A, Nolting JM, Tonkovich MJ, Genders JT, Montoney AJ, Kasnyik K, Linder TJ, Bevins SN, Lenoch JB, Chandler JC, DeLiberto TJ, Koonin EV, Suchard MA, Lemey P, Webby RJ, Nelson MI, Bowman AS. PMID: 37640694; PMCID: PMC10462754.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    27. Accelerating Bayesian inference of dependency between mixed-type biological traits. PLoS Comput Biol. 2023 08; 19(8):e1011419. Zhang Z, Nishimura A, Trovão NS, Cherry JL, Holbrook AJ, Ji X, Lemey P, Suchard MA. PMID: 37639445; PMCID: PMC10491301.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    28. Padé approximant meets federated learning: A nearly lossless, one-shot algorithm for evidence synthesis in distributed research networks with rare outcomes. J Biomed Inform. 2023 09; 145:104476. Wu Q, Schuemie MJ, Suchard MA, Ryan P, Hripcsak GM, Rohde CA, Chen Y. PMID: 37598737.
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    29. Newly identified lineages of porcine hemagglutinating encephalomyelitis virus exhibit respiratory phenotype. Virus Evol. 2023; 9(2):vead051. He WT, Li D, Baele G, Zhao J, Jiang Z, Ji X, Veit M, Suchard MA, Holmes EC, Lemey P, Boni MF, Su S. PMID: 37711483; PMCID: PMC10499004.
      View in: PubMed   Mentions: 1  
    30. Risk assessment of SARS-CoV-2 replicating and evolving in animals. Trends Microbiol. 2024 01; 32(1):79-92. Zhao J, Kang M, Wu H, Sun B, Baele G, He WT, Lu M, Suchard MA, Ji X, He N, Su S, Veit M. PMID: 37541811.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    31. A topology-marginal composite likelihood via a generalized phylogenetic pruning algorithm. Algorithms Mol Biol. 2023 Jul 31; 18(1):10. Jun SH, Nasif H, Jennings-Shaffer C, Rich DH, Kooperberg A, Fourment M, Zhang C, Suchard MA, Matsen FA. PMID: 37525243; PMCID: PMC10391877.
      View in: PubMed   Mentions: 1  
    32. Genomic assessment of invasion dynamics of SARS-CoV-2 Omicron BA.1. Science. 2023 07 21; 381(6655):336-343. Tsui JL, McCrone JT, Lambert B, Bajaj S, Inward RPD, Bosetti P, Pena RE, Tegally H, Hill V, Zarebski AE, Peacock TP, Liu L, Wu N, Davis M, Bogoch II, Khan K, Kall M, Abdul Aziz NIB, Colquhoun R, O'Toole Á, Jackson B, Dasgupta A, Wilkinson E, de Oliveira T, COVID-19 Genomics UK (COG-UK) consortium¶, Connor TR, Loman NJ, Colizza V, Fraser C, Volz E, Ji X, Gutierrez B, Chand M, Dellicour S, Cauchemez S, Raghwani J, Suchard MA, Lemey P, Rambaut A, Pybus OG, Kraemer MUG. PMID: 37471538; PMCID: PMC10866301.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    33. The recency and geographical origins of the bat viruses ancestral to SARS-CoV and SARS-CoV-2. bioRxiv. 2023 Jul 12. Pekar JE, Lytras S, Ghafari M, Magee AF, Parker E, Havens JL, Katzourakis A, Vasylyeva TI, Suchard MA, Hughes AC, Hughes J, Robertson DL, Dellicour S, Worobey M, Wertheim JO, Lemey P. PMID: 37502985; PMCID: PMC10369958.
      View in: PubMed   Mentions: 1  
    34. Serially Combining Epidemiological Designs Does Not Improve Overall Signal Detection in Vaccine Safety Surveillance. Drug Saf. 2023 08; 46(8):797-807. Arshad F, Schuemie MJ, Bu F, Minty EP, Alshammari TM, Lai LYH, Duarte-Salles T, Fortin S, Nyberg F, Ryan PB, Hripcsak G, Prieto-Alhambra D, Suchard MA. PMID: 37328600; PMCID: PMC10345011.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    35. Automatic Differentiation is no Panacea for Phylogenetic Gradient Computation. Genome Biol Evol. 2023 06 01; 15(6). Fourment M, Swanepoel CJ, Galloway JG, Ji X, Gangavarapu K, Suchard MA, Matsen Iv FA. PMID: 37265233; PMCID: PMC10282121.
      View in: PubMed   Mentions: 2     Fields:    
    36. Reproducible variability: assessing investigator discordance across 9 research teams attempting to reproduce the same observational study. J Am Med Inform Assoc. 2023 04 19; 30(5):859-868. Ostropolets A, Albogami Y, Conover M, Banda JM, Baumgartner WA, Blacketer C, Desai P, DuVall SL, Fortin S, Gilbert JP, Golozar A, Ide J, Kanter AS, Kern DM, Kim C, Lai LYH, Li C, Liu F, Lynch KE, Minty E, Neves MI, Ng DQ, Obene T, Pera V, Pratt N, Rao G, Rappoport N, Reinecke I, Saroufim P, Shoaibi A, Simon K, Suchard MA, Swerdel JN, Voss EA, Weaver J, Zhang L, Hripcsak G, Ryan PB. PMID: 36826399; PMCID: PMC10114120.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    37. Contextualising adverse events of special interest to characterise the baseline incidence rates in 24 million patients with COVID-19 across 26 databases: a multinational retrospective cohort study. EClinicalMedicine. 2023 Apr; 58:101932. Voss EA, Shoaibi A, Yin Hui Lai L, Blacketer C, Alshammari T, Makadia R, Haynes K, Sena AG, Rao G, van Sandijk S, Fraboulet C, Boyer L, Le Carrour T, Horban S, Morales DR, Martínez Roldán J, Ramírez-Anguita JM, Mayer MA, de Wilde M, John LH, Duarte-Salles T, Roel E, Pistillo A, Kolde R, Maljkovic F, Denaxas S, Papez V, Kahn MG, Natarajan K, Reich C, Secora A, Minty EP, Shah NH, Posada JD, Garcia Morales MT, Bosca D, Cadenas Juanino H, Diaz Holgado A, Pedrera Jiménez M, Serrano Balazote P, García Barrio N, Sen S, Üresin AY, Erdogan B, Belmans L, Byttebier G, Malbrain MLNG, Dedman DJ, Cuccu Z, Vashisht R, Butte AJ, Patel A, Dahm L, Han C, Bu F, Arshad F, Ostropolets A, Nyberg F, Hripcsak G, Suchard MA, Prieto-Alhambra D, Rijnbeek PR, Schuemie MJ, Ryan PB. PMID: 37034358; PMCID: PMC10072853.
      View in: PubMed   Mentions: 1  
    38. Persistence on Novel Cardioprotective Antihyperglycemic Therapies in the United States. Am J Cardiol. 2023 06 01; 196:89-98. Nargesi AA, Clark C, Aminorroaya A, Chen L, Liu M, Reddy A, Amodeo S, Oikonomou EK, Suchard MA, McGuire DK, Lin Z, Inzucchi S, Khera R. PMID: 37012183.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    39. Many-core algorithms for high-dimensional gradients on phylogenetic trees. ArXiv. 2023 Mar 08. Gangavarapu K, Ji X, Baele G, Fourment M, Lemey P, Iv FAM, Suchard MA. PMID: 36945693; PMCID: PMC10029048.
      View in: PubMed   Mentions:
    40. Outbreak.info genomic reports: scalable and dynamic surveillance of SARS-CoV-2 variants and mutations. Nat Methods. 2023 04; 20(4):512-522. Gangavarapu K, Latif AA, Mullen JL, Alkuzweny M, Hufbauer E, Tsueng G, Haag E, Zeller M, Aceves CM, Zaiets K, Cano M, Zhou X, Qian Z, Sattler R, Matteson NL, Levy JI, Lee RTC, Freitas L, Maurer-Stroh S, GISAID Core and Curation Team, Suchard MA, Wu C, Su AI, Andersen KG, Hughes LD. PMID: 36823332; PMCID: PMC10399614.
      View in: PubMed   Mentions: 102     Fields:    Translation:HumansCellsPHPublic Health
    41. Accelerated evolution of SARS-CoV-2 in free-ranging white-tailed deer. Res Sq. 2023 Feb 16. McBride D, Garushyants S, Franks J, Magee A, Overend S, Huey D, Williams A, Faith S, Kandeil A, Trifkovic S, Miller L, Jeevan T, Patel A, Nolting J, Tonkovich M, Genders JT, Montoney A, Kasnyik K, Linder T, Bevins S, Lenoch J, Chandler J, DeLiberto T, Koonin E, Suchard M, Lemey P, Webby R, Nelson M, Bowman A. PMID: 36824718; PMCID: PMC9949239.
      View in: PubMed   Mentions:
    42. Adjusting for both sequential testing and systematic error in safety surveillance using observational data: Empirical calibration and MaxSPRT. Stat Med. 2023 02 28; 42(5):619-631. Schuemie MJ, Bu F, Nishimura A, Suchard MA. PMID: 36642826; PMCID: PMC10107810.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    43. Early Genomic Surveillance and Phylogeographic Analysis of Getah Virus, a Reemerging Arbovirus, in Livestock in China. J Virol. 2023 01 31; 97(1):e0109122. Zhao J, Dellicour S, Yan Z, Veit M, Gill MS, He WT, Zhai X, Ji X, Suchard MA, Lemey P, Su S. PMID: 36475767; PMCID: PMC9888209.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    44. Corrigendum: Vaccine safety surveillance using routinely collected healthcare data-An empirical evaluation of epidemiological designs. Front Pharmacol. 2022; 13:1088973. Schuemie MJ, Arshad F, Pratt N, Nyberg F, Alshammari TM, Hripcsak G, Ryan P, Prieto-Alhambra D, Lai LYH, Li X, Fortin S, Minty E, Suchard MA. PMID: 36506524; PMCID: PMC9731373.
      View in: PubMed   Mentions:
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    87. A standardized analytics pipeline for reliable and rapid development and validation of prediction models using observational health data. Comput Methods Programs Biomed. 2021 Nov; 211:106394. Khalid S, Yang C, Blacketer C, Duarte-Salles T, Fernández-Bertolín S, Kim C, Park RW, Park J, Schuemie MJ, Sena AG, Suchard MA, You SC, Rijnbeek PR, Reps JM. PMID: 34560604; PMCID: PMC8420135.
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    88. Relax, Keep Walking - A Practical Guide to Continuous Phylogeographic Inference with BEAST. Mol Biol Evol. 2021 07 29; 38(8):3486-3493. Dellicour S, Gill MS, Faria NR, Rambaut A, Pybus OG, Suchard MA, Lemey P. PMID: 33528560; PMCID: PMC8321535.
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    89. Emergence of an early SARS-CoV-2 epidemic in the United States. Cell. 2021 09 16; 184(19):4939-4952.e15. Zeller M, Gangavarapu K, Anderson C, Smither AR, Vanchiere JA, Rose R, Snyder DJ, Dudas G, Watts A, Matteson NL, Robles-Sikisaka R, Marshall M, Feehan AK, Sabino-Santos G, Bell-Kareem AR, Hughes LD, Alkuzweny M, Snarski P, Garcia-Diaz J, Scott RS, Melnik LI, Klitting R, McGraw M, Belda-Ferre P, DeHoff P, Sathe S, Marotz C, Grubaugh ND, Nolan DJ, Drouin AC, Genemaras KJ, Chao K, Topol S, Spencer E, Nicholson L, Aigner S, Yeo GW, Farnaes L, Hobbs CA, Laurent LC, Knight R, Hodcroft EB, Khan K, Fusco DN, Cooper VS, Lemey P, Gardner L, Lamers SL, Kamil JP, Garry RF, Suchard MA, Andersen KG. PMID: 34508652; PMCID: PMC8313480.
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    90. Comparative First-Line Effectiveness and Safety of ACE (Angiotensin-Converting Enzyme) Inhibitors and Angiotensin Receptor Blockers: A Multinational Cohort Study. Hypertension. 2021 09; 78(3):591-603. Chen R, Suchard MA, Krumholz HM, Schuemie MJ, Shea S, Duke J, Pratt N, Reich CG, Madigan D, You SC, Ryan PB, Hripcsak G. PMID: 34304580; PMCID: PMC8363588.
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    91. Characteristics and Outcomes of Over 300,000 Patients with COVID-19 and History of Cancer in the United States and Spain. Cancer Epidemiol Biomarkers Prev. 2021 10; 30(10):1884-1894. Roel E, Pistillo A, Recalde M, Sena AG, Fernández-Bertolín S, Aragón M, Puente D, Ahmed WU, Alghoul H, Alser O, Alshammari TM, Areia C, Blacketer C, Carter W, Casajust P, Culhane AC, Dawoud D, DeFalco F, DuVall SL, Falconer T, Golozar A, Gong M, Hester L, Hripcsak G, Tan EH, Jeon H, Jonnagaddala J, Lai LYH, Lynch KE, Matheny ME, Morales DR, Natarajan K, Nyberg F, Ostropolets A, Posada JD, Prats-Uribe A, Reich CG, Rivera DR, Schilling LM, Soerjomataram I, Shah K, Shah NH, Shen Y, Spotniz M, Subbian V, Suchard MA, Trama A, Zhang L, Zhang Y, Ryan PB, Prieto-Alhambra D, Kostka K, Duarte-Salles T. PMID: 34272262; PMCID: PMC8974356.
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    92. Ebola vaccine-induced protection in nonhuman primates correlates with antibody specificity and Fc-mediated effects. Sci Transl Med. 2021 07 14; 13(602). Meyer M, Gunn BM, Malherbe DC, Gangavarapu K, Yoshida A, Pietzsch C, Kuzmina NA, Saphire EO, Collins PL, Crowe JE, Zhu JJ, Suchard MA, Brining DL, Mire CE, Cross RW, Geisbert JB, Samal SK, Andersen KG, Alter G, Geisbert TW, Bukreyev A. PMID: 34261800; PMCID: PMC8675601.
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    93. A phenomapping-derived tool to personalize the selection of anatomical vs. functional testing in evaluating chest pain (ASSIST). Eur Heart J. 2021 07 08; 42(26):2536-2548. Oikonomou EK, Van Dijk D, Parise H, Suchard MA, de Lemos J, Antoniades C, Velazquez EJ, Miller EJ, Khera R. PMID: 33881513; PMCID: PMC8488385.
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    94. Risk of depression, suicide and psychosis with hydroxychloroquine treatment for rheumatoid arthritis: a multinational network cohort study. Rheumatology (Oxford). 2021 07 01; 60(7):3222-3234. Lane JCE, Weaver J, Kostka K, Duarte-Salles T, Abrahao MTF, Alghoul H, Alser O, Alshammari TM, Areia C, Biedermann P, Banda JM, Burn E, Casajust P, Fister K, Hardin J, Hester L, Hripcsak G, Kaas-Hansen BS, Khosla S, Kolovos S, Lynch KE, Makadia R, Mehta PP, Morales DR, Morgan-Stewart H, Mosseveld M, Newby D, Nyberg F, Ostropolets A, Woong Park R, Prats-Uribe A, Rao GA, Reich C, Rijnbeek P, Sena AG, Shoaibi A, Spotnitz M, Subbian V, Suchard MA, Vizcaya D, Wen H, Wilde M, Xie J, You SC, Zhang L, Lovestone S, Ryan P, Prieto-Alhambra D, OHDSI-COVID-19 consortium. PMID: 33367863; PMCID: PMC7798671.
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    95. Untangling introductions and persistence in COVID-19 resurgence in Europe. Nature. 2021 07; 595(7869):713-717. Lemey P, Ruktanonchai N, Hong SL, Colizza V, Poletto C, Van den Broeck F, Gill MS, Ji X, Levasseur A, Oude Munnink BB, Koopmans M, Sadilek A, Lai S, Tatem AJ, Baele G, Suchard MA, Dellicour S. PMID: 34192736; PMCID: PMC8324533.
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    96. Characterising the background incidence rates of adverse events of special interest for covid-19 vaccines in eight countries: multinational network cohort study. BMJ. 2021 06 14; 373:n1435. Li X, Ostropolets A, Makadia R, Shoaibi A, Rao G, Sena AG, Martinez-Hernandez E, Delmestri A, Verhamme K, Rijnbeek PR, Duarte-Salles T, Suchard MA, Ryan PB, Hripcsak G, Prieto-Alhambra D. PMID: 35727911; PMCID: PMC8193077.
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    97. Thirty-Day Outcomes of Children and Adolescents With COVID-19: An International Experience. Pediatrics. 2021 09; 148(3). Duarte-Salles T, Vizcaya D, Pistillo A, Casajust P, Sena AG, Lai LYH, Prats-Uribe A, Ahmed WU, Alshammari TM, Alghoul H, Alser O, Burn E, You SC, Areia C, Blacketer C, DuVall S, Falconer T, Fernandez-Bertolin S, Fortin S, Golozar A, Gong M, Tan EH, Huser V, Iveli P, Morales DR, Nyberg F, Posada JD, Recalde M, Roel E, Schilling LM, Shah NH, Shah K, Suchard MA, Zhang L, Zhang Y, Williams AE, Reich CG, Hripcsak G, Rijnbeek P, Ryan P, Kostka K, Prieto-Alhambra D. PMID: 34049958.
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    98. A phylogenetic approach for weighting genetic sequences. BMC Bioinformatics. 2021 May 28; 22(1):285. De Maio N, Alekseyenko AV, Coleman-Smith WJ, Pardi F, Suchard MA, Tamuri AU, Truszkowski J, Goldman N. PMID: 34049487; PMCID: PMC8164272.
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    99. Use of repurposed and adjuvant drugs in hospital patients with covid-19: multinational network cohort study. BMJ. 2021 05 11; 373:n1038. Prats-Uribe A, Sena AG, Lai LYH, Ahmed WU, Alghoul H, Alser O, Alshammari TM, Areia C, Carter W, Casajust P, Dawoud D, Golozar A, Jonnagaddala J, Mehta PP, Gong M, Morales DR, Nyberg F, Posada JD, Recalde M, Roel E, Shah K, Shah NH, Schilling LM, Subbian V, Vizcaya D, Zhang L, Zhang Y, Zhu H, Liu L, Cho J, Lynch KE, Matheny ME, You SC, Rijnbeek PR, Hripcsak G, Lane JC, Burn E, Reich C, Suchard MA, Duarte-Salles T, Kostka K, Ryan PB, Prieto-Alhambra D. PMID: 33975825; PMCID: PMC8111167.
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    100. Male-Female Disparities in Years of Potential Life Lost Attributable to COVID-19 in the United States: A State-by-State Analysis. medRxiv. 2021 May 05. Xu JJ, Chen JT, Belin TR, Brookmeyer RS, Suchard MA, Ramirez CM. PMID: 33972951; PMCID: PMC8109188.
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    101. Drawing Reproducible Conclusions from Observational Clinical Data with OHDSI. Yearb Med Inform. 2021 Aug; 30(1):283-289. Hripcsak G, Schuemie MJ, Madigan D, Ryan PB, Suchard MA. PMID: 33882595; PMCID: PMC8416226.
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    102. Characterizing the incidence of adverse events of special interest for COVID-19 vaccines across eight countries: a multinational network cohort study. medRxiv. 2021 Apr 17. Li X, Ostropolets A, Makadia R, Shaoibi A, Rao G, Sena AG, Martinez-Hernandez E, Delmestri A, Verhamme K, Rijnbeek PR, Duarte-Salles T, Suchard M, Ryan P, Hripcsak G, Prieto-Alhambra D. PMID: 33791732; PMCID: PMC8010764.
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    103. Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil. Science. 2021 05 21; 372(6544):815-821. Faria NR, Mellan TA, Whittaker C, Claro IM, Candido DDS, Mishra S, Crispim MAE, Sales FCS, Hawryluk I, McCrone JT, Hulswit RJG, Franco LAM, Ramundo MS, de Jesus JG, Andrade PS, Coletti TM, Ferreira GM, Silva CAM, Manuli ER, Pereira RHM, Peixoto PS, Kraemer MUG, Gaburo N, Camilo CDC, Hoeltgebaum H, Souza WM, Rocha EC, de Souza LM, de Pinho MC, Araujo LJT, Malta FSV, de Lima AB, Silva JDP, Zauli DAG, Ferreira ACS, Schnekenberg RP, Laydon DJ, Walker PGT, Schlüter HM, Dos Santos ALP, Vidal MS, Del Caro VS, Filho RMF, Dos Santos HM, Aguiar RS, Proença-Modena JL, Nelson B, Hay JA, Monod M, Miscouridou X, Coupland H, Sonabend R, Vollmer M, Gandy A, Prete CA, Nascimento VH, Suchard MA, Bowden TA, Pond SLK, Wu CH, Ratmann O, Ferguson NM, Dye C, Loman NJ, Lemey P, Rambaut A, Fraiji NA, Carvalho MDPSS, Pybus OG, Flaxman S, Bhatt S, Sabino EC. PMID: 33853970; PMCID: PMC8139423.
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    104. Implementation of the COVID-19 Vulnerability Index Across an International Network of Health Care Data Sets: Collaborative External Validation Study. JMIR Med Inform. 2021 Apr 05; 9(4):e21547. Reps JM, Kim C, Williams RD, Markus AF, Yang C, Duarte-Salles T, Falconer T, Jonnagaddala J, Williams A, Fernández-Bertolín S, DuVall SL, Kostka K, Rao G, Shoaibi A, Ostropolets A, Spotnitz ME, Zhang L, Casajust P, Steyerberg EW, Nyberg F, Kaas-Hansen BS, Choi YH, Morales D, Liaw ST, Abrahão MTF, Areia C, Matheny ME, Lynch KE, Aragón M, Park RW, Hripcsak G, Reich CG, Suchard MA, You SC, Ryan PB, Prieto-Alhambra D, Rijnbeek PR. PMID: 33661754; PMCID: PMC8023380.
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    105. Ebola Virus Transmission Initiated by Relapse of Systemic Ebola Virus Disease. N Engl J Med. 2021 04 01; 384(13):1240-1247. Mbala-Kingebeni P, Pratt C, Mutafali-Ruffin M, Pauthner MG, Bile F, Nkuba-Ndaye A, Black A, Kinganda-Lusamaki E, Faye M, Aziza A, Diagne MM, Mukadi D, White B, Hadfield J, Gangavarapu K, Bisento N, Kazadi D, Nsunda B, Akonga M, Tshiani O, Misasi J, Ploquin A, Epaso V, Sana-Paka E, N'kasar YTT, Mambu F, Edidi F, Matondo M, Bula Bula J, Diallo B, Keita M, Belizaire MRD, Fall IS, Yam A, Mulangu S, Rimoin AW, Salfati E, Torkamani A, Suchard MA, Crozier I, Hensley L, Rambaut A, Faye O, Sall A, Sullivan NJ, Bedford T, Andersen KG, Wiley MR, Ahuka-Mundeke S, Muyembe Tamfum JJ. PMID: 33789012; PMCID: PMC7888312.
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    106. Bayesian Phylogeographic Analysis Incorporating Predictors and Individual Travel Histories in BEAST. Curr Protoc. 2021 Apr; 1(4):e98. Hong SL, Lemey P, Suchard MA, Baele G. PMID: 33836121; PMCID: PMC8672455.
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    107. Emergence and rapid transmission of SARS-CoV-2 B.1.1.7 in the United States. Cell. 2021 05 13; 184(10):2587-2594.e7. Washington NL, Gangavarapu K, Zeller M, Bolze A, Cirulli ET, Schiabor Barrett KM, Larsen BB, Anderson C, White S, Cassens T, Jacobs S, Levan G, Nguyen J, Ramirez JM, Rivera-Garcia C, Sandoval E, Wang X, Wong D, Spencer E, Robles-Sikisaka R, Kurzban E, Hughes LD, Deng X, Wang C, Servellita V, Valentine H, De Hoff P, Seaver P, Sathe S, Gietzen K, Sickler B, Antico J, Hoon K, Liu J, Harding A, Bakhtar O, Basler T, Austin B, MacCannell D, Isaksson M, Febbo PG, Becker D, Laurent M, McDonald E, Yeo GW, Knight R, Laurent LC, de Feo E, Worobey M, Chiu CY, Suchard MA, Lu JT, Lee W, Andersen KG. PMID: 33861950; PMCID: PMC8009040.
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    108. Pandemic velocity: Forecasting COVID-19 in the US with a machine learning & Bayesian time series compartmental model. PLoS Comput Biol. 2021 03; 17(3):e1008837. Watson GL, Xiong D, Zhang L, Zoller JA, Shamshoian J, Sundin P, Bufford T, Rimoin AW, Suchard MA, Ramirez CM. PMID: 33780443; PMCID: PMC8031749.
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    109. Comprehensive Comparative Effectiveness and Safety of First-Line β-Blocker Monotherapy in Hypertensive Patients: A Large-Scale Multicenter Observational Study. Hypertension. 2021 05 05; 77(5):1528-1538. Chan You S, Krumholz HM, Suchard MA, Schuemie MJ, Hripcsak G, Chen R, Shea S, Duke J, Pratt N, Reich CG, Madigan D, Ryan PB, Woong Park R, Park S. PMID: 33775125; PMCID: PMC8035236.
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    110. Alpha-1 blockers and susceptibility to COVID-19 in benign prostate hyperplasia patients : an international cohort study. medRxiv. 2021 Mar 24. Nishimura A, Xie J, Kostka K, Duarte-Salles T, Bertolín SF, Aragón M, Blacketer C, Shoaibi A, DuVall SL, Lynch K, Matheny ME, Falconer T, Morales DR, Conover MM, You SC, Pratt N, Weaver J, Sena AG, Schuemie MJ, Reps J, Reich C, Rijnbeek PR, Ryan PB, Hripcsak G, Prieto-Alhambra D, Suchard MA. PMID: 33791740; PMCID: PMC8010772.
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    112. Genomics and epidemiology of a novel SARS-CoV-2 lineage in Manaus, Brazil. medRxiv. 2021 Mar 03. Faria NR, Mellan TA, Whittaker C, Claro IM, Candido DDS, Mishra S, Crispim MAE, Sales FC, Hawryluk I, McCrone JT, Hulswit RJG, Franco LAM, Ramundo MS, de Jesus JG, Andrade PS, Coletti TM, Ferreira GM, Silva CAM, Manuli ER, Pereira RHM, Peixoto PS, Kraemer MU, Gaburo N, Camilo CDC, Hoeltgebaum H, Souza WM, Rocha EC, de Souza LM, de Pinho MC, Araujo LJT, Malta FSV, de Lima AB, Silva JDP, Zauli DAG, de S Ferreira AC, Schnekenberg RP, Laydon DJ, Walker PGT, Schlüter HM, Dos Santos ALP, Vidal MS, Del Caro VS, Filho RMF, Dos Santos HM, Aguiar RS, Modena JLP, Nelson B, Hay JA, Monod M, Miscouridou X, Coupland H, Sonabend R, Vollmer M, Gandy A, Suchard MA, Bowden TA, Pond SLK, Wu CH, Ratmann O, Ferguson NM, Dye C, Loman NJ, Lemey P, Rambaut A, Fraiji NA, Carvalho MDPSS, Pybus OG, Flaxman S, Bhatt S, Sabino EC. PMID: 33688664; PMCID: PMC7941639.
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    113. Unraveling COVID-19: a large-scale characterization of 4.5 million COVID-19 cases using CHARYBDIS. Res Sq. 2021 Mar 01. Prieto-Alhambra D, Kostka K, Duarte-Salles T, Prats-Uribe A, Sena A, Pistillo A, Khalid S, Lai L, Golozar A, Alshammari TM, Dawoud D, Nyberg F, Wilcox A, Andryc A, Williams A, Ostropolets A, Areia C, Jung CY, Harle C, Reich C, Blacketer C, Morales D, Dorr DA, Burn E, Roel E, Tan EH, Minty E, DeFalco F, de Maeztu G, Lipori G, Alghoul H, Zhu H, Thomas J, Bian J, Park J, Roldán JM, Posada J, Banda JM, Horcajada JP, Kohler J, Shah K, Natarajan K, Lynch K, Liu L, Schilling L, Recalde M, Spotnitz M, Gong M, Matheny M, Valveny N, Weiskopf N, Shah N, Alser O, Casajust P, Park RW, Schuff R, Seager S, DuVall S, You SC, Song S, Fernández-Bertolín S, Fortin S, Magoc T, Falconer T, Subbian V, Huser V, Ahmed WU, Carter W, Guan Y, Galvan Y, He X, Rijnbeek P, Hripcsak G, Ryan P, Suchard M. PMID: 33688639; PMCID: PMC7941629.
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    115. SARS-CoV-2 European resurgence foretold: interplay of introductions and persistence by leveraging genomic and mobility data. Res Sq. 2021 Feb 10. Lemey P, Ruktanonchai N, Hong SL, Colizza V, Poletto C, Van den Broeck F, Gill MS, Ji X, Levasseur A, Sadilek A, Lai S, Tatem AJ, Baele G, Suchard MA, Dellicour S. PMID: 33594355; PMCID: PMC7885927.
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    117. Emergence of an early SARS-CoV-2 epidemic in the United States. medRxiv. 2021 Feb 08. Zeller M, Gangavarapu K, Anderson C, Smither AR, Vanchiere JA, Rose R, Snyder DJ, Dudas G, Watts A, Matteson NL, Robles-Sikisaka R, Marshall M, Feehan AK, Sabino-Santos G, Bell-Kareem AR, Hughes LD, Alkuzweny M, Snarski P, Garcia-Diaz J, Scott RS, Melnik LI, Klitting R, McGraw M, Belda-Ferre P, DeHoff P, Sathe S, Marotz C, Grubaugh N, Nolan DJ, Drouin AC, Genemaras KJ, Chao K, Topol S, Spencer E, Nicholson L, Aigner S, Yeo GW, Farnaes L, Hobbs CA, Laurent LC, Knight R, Hodcroft EB, Khan K, Fusco DN, Cooper VS, Lemey P, Gardner L, Lamers SL, Kamil JP, Garry RF, Suchard MA, Andersen KG. PMID: 33564781; PMCID: PMC7872376.
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    118. Genomic epidemiology identifies emergence and rapid transmission of SARS-CoV-2 B.1.1.7 in the United States. medRxiv. 2021 Feb 07. Washington NL, Gangavarapu K, Zeller M, Bolze A, Cirulli ET, Barrett KMS, Larsen BB, Anderson C, White S, Cassens T, Jacobs S, Levan G, Nguyen J, Ramirez JM, Rivera-Garcia C, Sandoval E, Wang X, Wong D, Spencer E, Robles-Sikisaka R, Kurzban E, Hughes LD, Deng X, Wang C, Servellita V, Valentine H, De Hoff P, Seaver P, Sathe S, Gietzen K, Sickler B, Antico J, Hoon K, Liu J, Harding A, Bakhtar O, Basler T, Austin B, Isaksson M, Febbo PG, Becker D, Laurent M, McDonald E, Yeo GW, Knight R, Laurent LC, de Feo E, Worobey M, Chiu C, Suchard MA, Lu JT, Lee W, Andersen KG. PMID: 33564780; PMCID: PMC7872373.
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    119. Erratum to: Large-Scale Evidence Generation and Evaluation across a Network of Databases (LEGEND): Assessing Validity Using Hypertension as a Case Study. J Am Med Inform Assoc. 2021 01 15; 28(1):196. Schuemie MJ, Ryan PB, Pratt N, Chen R, You SC, Krumholz HM, Madigan D, Hripcsak G, Suchard MA. PMID: 33099616; PMCID: PMC7810446.
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    122. Renin-angiotensin system blockers and susceptibility to COVID-19: an international, open science, cohort analysis. Lancet Digit Health. 2021 02; 3(2):e98-e114. Morales DR, Conover MM, You SC, Pratt N, Kostka K, Duarte-Salles T, Fernández-Bertolín S, Aragón M, DuVall SL, Lynch K, Falconer T, van Bochove K, Sung C, Matheny ME, Lambert CG, Nyberg F, Alshammari TM, Williams AE, Park RW, Weaver J, Sena AG, Schuemie MJ, Rijnbeek PR, Williams RD, Lane JCE, Prats-Uribe A, Zhang L, Areia C, Krumholz HM, Prieto-Alhambra D, Ryan PB, Hripcsak G, Suchard MA. PMID: 33342753; PMCID: PMC7834915.
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    123. Scalable Algorithms for Large Competing Risks Data. J Comput Graph Stat. 2021; 30(3):685-693. Kawaguchi ES, Shen JI, Suchard MA, Li G. PMID: 35983577; PMCID: PMC9385160.
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    245. Simultaneously reconstructing viral cross-species transmission history and identifying the underlying constraints. Philos Trans R Soc Lond B Biol Sci. 2013 Mar 19; 368(1614):20120196. Faria NR, Suchard MA, Rambaut A, Streicker DG, Lemey P. PMID: 23382420; PMCID: PMC3678322.
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    246. Graph hierarchies for phylogeography. Philos Trans R Soc Lond B Biol Sci. 2013 Mar 19; 368(1614):20120206. Cybis GB, Sinsheimer JS, Lemey P, Suchard MA. PMID: 23382428; PMCID: PMC3678330.
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    247. Massive parallelization of serial inference algorithms for a complex generalized linear model. ACM Trans Model Comput Simul. 2013 Jan; 23(1). Suchard MA, Simpson SE, Zorych I, Ryan P, Madigan D. PMID: 25328363; PMCID: PMC4201181.
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    248. Fitting Birth-Death Processes to Panel Data with Applications to Bacterial DNA Fingerprinting. Ann Appl Stat. 2013; 7(4):2315-2335. Doss CR, Suchard MA, Holmes I, Kato-Maeda M, Minin VN. PMID: 26702330; PMCID: PMC4685745.
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    249. Bayesian selection of nucleotide substitution models and their site assignments. Mol Biol Evol. 2013 Mar; 30(3):669-88. Wu CH, Suchard MA, Drummond AJ. PMID: 23233462; PMCID: PMC3563969.
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    250. Improving Bayesian population dynamics inference: a coalescent-based model for multiple loci. Mol Biol Evol. 2013 Mar; 30(3):713-24. Gill MS, Lemey P, Faria NR, Rambaut A, Shapiro B, Suchard MA. PMID: 23180580; PMCID: PMC3563973.
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    251. Phylogeography of dengue virus serotype 4, Brazil, 2010-2011. Emerg Infect Dis. 2012 Nov; 18(11):1858-64. Nunes MR, Faria NR, Vasconcelos HB, Medeiros DB, Silva de Lima CP, Carvalho VL, Pinto da Silva EV, Cardoso JF, Sousa EC, Nunes KN, Rodrigues SG, Abecasis AB, Suchard MA, Lemey P, Vasconcelos PF. PMID: 23092706; PMCID: PMC3559147.
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    252. Accurate model selection of relaxed molecular clocks in bayesian phylogenetics. Mol Biol Evol. 2013 Feb; 30(2):239-43. Baele G, Li WL, Drummond AJ, Suchard MA, Lemey P. PMID: 23090976; PMCID: PMC3548314.
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    253. A counting renaissance: combining stochastic mapping and empirical Bayes to quickly detect amino acid sites under positive selection. Bioinformatics. 2012 Dec 15; 28(24):3248-56. Lemey P, Minin VN, Bielejec F, Kosakovsky Pond SL, Suchard MA. PMID: 23064000; PMCID: PMC3579240.
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    254. Unifying the spatial epidemiology and molecular evolution of emerging epidemics. Proc Natl Acad Sci U S A. 2012 Sep 11; 109(37):15066-71. Pybus OG, Suchard MA, Lemey P, Bernardin FJ, Rambaut A, Crawford FW, Gray RR, Arinaminpathy N, Stramer SL, Busch MP, Delwart EL. PMID: 22927414; PMCID: PMC3443149.
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    255. Mapping the origins and expansion of the Indo-European language family. Science. 2012 Aug 24; 337(6097):957-60. Bouckaert R, Lemey P, Dunn M, Greenhill SJ, Alekseyenko AV, Drummond AJ, Gray RD, Suchard MA, Atkinson QD. PMID: 22923579; PMCID: PMC4112997.
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    256. A novel empirical mutual information approach to identify co-evolving amino acid positions of influenza A viruses. Comput Biol Chem. 2012 Aug; 39:20-8. Gong YN, Chen GW, Suchard MA. PMID: 22858722.
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    257. Molecular dating of human-to-bovid host jumps by Staphylococcus aureus reveals an association with the spread of domestication. Biol Lett. 2012 Oct 23; 8(5):829-32. Weinert LA, Welch JJ, Suchard MA, Lemey P, Rambaut A, Fitzgerald JR. PMID: 22628096; PMCID: PMC3440972.
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    258. Recombination between variants from genital tract and plasma: evolution of multidrug-resistant HIV type 1. AIDS Res Hum Retroviruses. 2012 Dec; 28(12):1766-74. Kemal KS, Ramirez CM, Burger H, Foley B, Mayers D, Klimkait T, Hamy F, Anastos K, Petrovic K, Minin VN, Suchard MA, Weiser B. PMID: 22364185; PMCID: PMC3505048.
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    259. Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty. Mol Biol Evol. 2012 Sep; 29(9):2157-67. Baele G, Lemey P, Bedford T, Rambaut A, Suchard MA, Alekseyenko AV. PMID: 22403239; PMCID: PMC3424409.
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    261. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst Biol. 2012 May; 61(3):539-42. Ronquist F, Teslenko M, van der Mark P, Ayres DL, Darling A, Höhna S, Larget B, Liu L, Suchard MA, Huelsenbeck JP. PMID: 22357727; PMCID: PMC3329765.
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    263. Phylogeographical footprint of colonial history in the global dispersal of human immunodeficiency virus type 2 group A. J Gen Virol. 2012 Apr; 93(Pt 4):889-899. Faria NR, Hodges-Mameletzis I, Silva JC, Rodés B, Erasmus S, Paolucci S, Ruelle J, Pieniazek D, Taveira N, Treviño A, Gonçalves MF, Jallow S, Xu L, Camacho RJ, Soriano V, Goubau P, de Sousa JD, Vandamme AM, Suchard MA, Lemey P. PMID: 22190015; PMCID: PMC3542711.
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    264. Does history repeat itself? Wavelets and the phylodynamics of influenza A. Mol Biol Evol. 2012 May; 29(5):1367-77. Tom JA, Sinsheimer JS, Suchard MA. PMID: 22160768; PMCID: PMC3339318.
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    265. Species-specific responses of Late Quaternary megafauna to climate and humans. Nature. 2011 Nov 02; 479(7373):359-64. Lorenzen ED, Nogués-Bravo D, Orlando L, Weinstock J, Binladen J, Marske KA, Ugan A, Borregaard MK, Gilbert MT, Nielsen R, Ho SY, Goebel T, Graf KE, Byers D, Stenderup JT, Rasmussen M, Campos PF, Leonard JA, Koepfli KP, Froese D, Zazula G, Stafford TW, Aaris-Sørensen K, Batra P, Haywood AM, Singarayer JS, Valdes PJ, Boeskorov G, Burns JA, Davydov SP, Haile J, Jenkins DL, Kosintsev P, Kuznetsova T, Lai X, Martin LD, McDonald HG, Mol D, Meldgaard M, Munch K, Stephan E, Sablin M, Sommer RS, Sipko T, Scott E, Suchard MA, Tikhonov A, Willerslev R, Wayne RK, Cooper A, Hofreiter M, Sher A, Shapiro B, Rahbek C, Willerslev E. PMID: 22048313; PMCID: PMC4070744.
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    270. A Bayesian model for the common effects of multiple predictors on mixed outcomes. Interface Focus. 2011 Dec 06; 1(6):886-94. Weiss RE, Jia J, Suchard MA. PMID: 22419987; PMCID: PMC3262291.
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    272. Spatial dynamics of human-origin H1 influenza A virus in North American swine. PLoS Pathog. 2011 Jun; 7(6):e1002077. Nelson MI, Lemey P, Tan Y, Vincent A, Lam TT, Detmer S, Viboud C, Suchard MA, Rambaut A, Holmes EC, Gramer M. PMID: 21695237; PMCID: PMC3111536.
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    273. Phylodynamics of the HIV-1 CRF02_AG clade in Cameroon. Infect Genet Evol. 2012 Mar; 12(2):453-60. Faria NR, Suchard MA, Abecasis A, Sousa JD, Ndembi N, Bonfim I, Camacho RJ, Vandamme AM, Lemey P. PMID: 21565285; PMCID: PMC4677783.
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    274. Biologically inspired phylogenetic models strongly outperform the no common mechanism model. Syst Biol. 2011 Mar; 60(2):225-32. Huelsenbeck JP, Alfaro ME, Suchard MA. PMID: 21252385; PMCID: PMC3038349.
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    275. Modeling Protein Expression and Protein Signaling Pathways. J Am Stat Assoc. 2011; 107(500):1372-1384. Telesca D, Müller P, Kornblau SM, Suchard MA, Ji Y. PMID: 26246646; PMCID: PMC4523312.
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    277. Testing spatiotemporal hypothesis of bacterial evolution using methicillin-resistant Staphylococcus aureus ST239 genome-wide data within a bayesian framework. Mol Biol Evol. 2011 May; 28(5):1593-603. Gray RR, Tatem AJ, Johnson JA, Alekseyenko AV, Pybus OG, Suchard MA, Salemi M. PMID: 21112962; PMCID: PMC3115679.
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    278. Phylodynamics and human-mediated dispersal of a zoonotic virus. PLoS Pathog. 2010 Oct 28; 6(10):e1001166. Talbi C, Lemey P, Suchard MA, Abdelatif E, Elharrak M, Nourlil J, Jalal N, Faouzi A, Echevarría JE, Vazquez Morón S, Rambaut A, Campiz N, Tatem AJ, Holmes EC, Bourhy H. PMID: 21060816; PMCID: PMC2965766.
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    280. Three roads diverged? Routes to phylogeographic inference. Trends Ecol Evol. 2010 Nov; 25(11):626-32. Bloomquist EW, Lemey P, Suchard MA. PMID: 20863591; PMCID: PMC2956787.
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    281. Bayesian random local clocks, or one rate to rule them all. BMC Biol. 2010 Aug 31; 8:114. Drummond AJ, Suchard MA. PMID: 20807414; PMCID: PMC2949620.
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    282. Graphics Processing Units and High-Dimensional Optimization. Stat Sci. 2010 Aug 01; 25(3):311-324. Zhou H, Lange K, Suchard MA. PMID: 21847315; PMCID: PMC3155776.
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    284. Understanding GPU Programming for Statistical Computation: Studies in Massively Parallel Massive Mixtures. J Comput Graph Stat. 2010 Jun 01; 19(2):419-438. Suchard MA, Wang Q, Chan C, Frelinger J, Cron A, West M. PMID: 20877443; PMCID: PMC2945379.
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    286. Using time-structured data to estimate evolutionary rates of double-stranded DNA viruses. Mol Biol Evol. 2010 Sep; 27(9):2038-51. Firth C, Kitchen A, Shapiro B, Suchard MA, Holmes EC, Rambaut A. PMID: 20363828; PMCID: PMC3107591.
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    287. Ancient DNA analyses exclude humans as the driving force behind late Pleistocene musk ox (Ovibos moschatus) population dynamics. Proc Natl Acad Sci U S A. 2010 Mar 23; 107(12):5675-80. Campos PF, Willerslev E, Sher A, Orlando L, Axelsson E, Tikhonov A, Aaris-Sørensen K, Greenwood AD, Kahlke RD, Kosintsev P, Krakhmalnaya T, Kuznetsova T, Lemey P, MacPhee R, Norris CA, Shepherd K, Suchard MA, Zazula GD, Shapiro B, Gilbert MT. PMID: 20212118; PMCID: PMC2851807.
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    288. Phylogeography takes a relaxed random walk in continuous space and time. Mol Biol Evol. 2010 Aug; 27(8):1877-85. Lemey P, Rambaut A, Welch JJ, Suchard MA. PMID: 20203288; PMCID: PMC2915639.
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    289. Reuse, Recycle, Reweigh: Combating Influenza through Efficient Sequential Bayesian Computation for Massive Data. Ann Appl Stat. 2010; 4(4):1722-1748. Tom JA, Sinsheimer JS, Suchard MA. PMID: 26681992; PMCID: PMC4679157.
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    291. Bayesian phylogeography finds its roots. PLoS Comput Biol. 2009 Sep; 5(9):e1000520. Lemey P, Rambaut A, Drummond AJ, Suchard MA. PMID: 19779555; PMCID: PMC2740835.
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    292. Reconstructing the initial global spread of a human influenza pandemic: a Bayesian spatial-temporal model for the global spread of H1N1pdm. PLoS Curr. 2009 Sep 02; 1:RRN1031. Lemey P, Suchard M, Rambaut A. PMID: 20029613; PMCID: PMC2762761.1.
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    297. Fast, accurate and simulation-free stochastic mapping. Philos Trans R Soc Lond B Biol Sci. 2008 Dec 27; 363(1512):3985-95. Minin VN, Suchard MA. PMID: 18852111; PMCID: PMC2607419.
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    299. Fully Bayesian tests of neutrality using genealogical summary statistics. BMC Genet. 2008 Oct 31; 9:68. Drummond AJ, Suchard MA. PMID: 18976476; PMCID: PMC2645432.
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    301. StepBrothers: inferring partially shared ancestries among recombinant viral sequences. Biostatistics. 2009 Jan; 10(1):106-20. Bloomquist EW, Dorman KS, Suchard MA. PMID: 18562348; PMCID: PMC2639346.
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    302. Dating the time of viral subtype divergence. BMC Evol Biol. 2008 Jun 09; 8:172. O'Brien JD, She ZS, Suchard MA. PMID: 18541033; PMCID: PMC2443812.
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    303. Pomegranate juice and extracts provide similar levels of plasma and urinary ellagitannin metabolites in human subjects. J Med Food. 2008 Jun; 11(2):390-4. Seeram NP, Zhang Y, McKeever R, Henning SM, Lee RP, Suchard MA, Li Z, Chen S, Thames G, Zerlin A, Nguyen M, Wang D, Dreher M, Heber D. PMID: 18598186; PMCID: PMC3196216.
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    304. Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics. Mol Biol Evol. 2008 Jul; 25(7):1459-71. Minin VN, Bloomquist EW, Suchard MA. PMID: 18408232; PMCID: PMC3302198.
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    305. Alignment uncertainty and genomic analysis. Science. 2008 Jan 25; 319(5862):473-6. Wong KM, Suchard MA, Huelsenbeck JP. PMID: 18218900.
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    306. Representational oligonucleotide microarray analysis (ROMA) and comparison of binning and change-point methods of analysis: application to detection of del22q11.2 (DiGeorge) syndrome. Hum Mutat. 2008 Jan; 29(1):176-81. Stanczak CM, Chen Z, Nelson SF, Suchard M, McCabe ER, McGhee S. PMID: 17694540.
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    309. Validation of candidate serum ovarian cancer biomarkers for early detection. Biomark Insights. 2007 Oct 16; 2:369-75. Su F, Lang J, Kumar A, Ng C, Hsieh B, Suchard MA, Reddy ST, Farias-Eisner R. PMID: 19662218; PMCID: PMC2717832.
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    312. Development of an advanced electrochemical DNA biosensor for bacterial pathogen detection. J Mol Diagn. 2007 Apr; 9(2):158-68. Liao JC, Mastali M, Li Y, Gau V, Suchard MA, Babbitt J, Gornbein J, Landaw EM, McCabe ER, Churchill BM, Haake DA. PMID: 17384207; PMCID: PMC1867445.
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    316. Continued evolution in gp41 after interruption of enfuvirtide in subjects with advanced HIV type 1 disease. AIDS Res Hum Retroviruses. 2006 Dec; 22(12):1260-6. Kitchen CM, Lu J, Suchard MA, Hoh R, Martin JN, Kuritzkes DR, Deeks SG. PMID: 17209769.
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    319. Modeling of the temporal patterns of fluoxetine prescriptions and suicide rates in the United States. PLoS Med. 2006 Jun; 3(6):e190. Milane MS, Suchard MA, Wong ML, Licinio J. PMID: 16768544; PMCID: PMC1475655.
      View in: PubMed   Mentions: 23     Fields:    Translation:Humans
    320. BAli-Phy: simultaneous Bayesian inference of alignment and phylogeny. Bioinformatics. 2006 Aug 15; 22(16):2047-8. Suchard MA, Redelings BD. PMID: 16679334.
      View in: PubMed   Mentions: 99     Fields:    Translation:Cells
    321. Use of electrochemical DNA biosensors for rapid molecular identification of uropathogens in clinical urine specimens. J Clin Microbiol. 2006 Feb; 44(2):561-70. Liao JC, Mastali M, Gau V, Suchard MA, Møller AK, Bruckner DA, Babbitt JT, Li Y, Gornbein J, Landaw EM, McCabe ER, Churchill BM, Haake DA. PMID: 16455913; PMCID: PMC1392664.
      View in: PubMed   Mentions: 70     Fields:    Translation:HumansCells
    322. Models for estimating bayes factors with applications to phylogeny and tests of monophyly. Biometrics. 2005 Sep; 61(3):665-73. Suchard MA, Weiss RE, Sinsheimer JS. PMID: 16135017.
      View in: PubMed   Mentions: 28     Fields:    Translation:HumansCells
    323. Joint Bayesian estimation of alignment and phylogeny. Syst Biol. 2005 Jun; 54(3):401-18. Redelings BD, Suchard MA. PMID: 16012107.
      View in: PubMed   Mentions: 99     Fields:    Translation:Cells
    324. Dual multiple change-point model leads to more accurate recombination detection. Bioinformatics. 2005 Jul 01; 21(13):3034-42. Minin VN, Dorman KS, Fang F, Suchard MA. PMID: 15914546.
      View in: PubMed   Mentions: 64     Fields:    
    325. Stochastic models for horizontal gene transfer: taking a random walk through tree space. Genetics. 2005 May; 170(1):419-31. Suchard MA. PMID: 15781714; PMCID: PMC1449731.
      View in: PubMed   Mentions: 17     Fields:    Translation:Cells
    326. Bayesian estimation of recent migration rates after a spatial expansion. Genetics. 2005 May; 170(1):409-17. Hamilton G, Currat M, Ray N, Heckel G, Beaumont M, Excoffier L. PMID: 15716508; PMCID: PMC1449703.
      View in: PubMed   Mentions: 29     Fields:    Translation:AnimalsCells
    327. Early nodal response as a predictor for necessity of functional neck dissection after chemoradiation. Cancer J. 2004 Nov-Dec; 10(6):339-42. Vongtama R, Lee M, Kim B, Sercarz J, Lin K, Suchard MA, Lee SP, Juillard G. PMID: 15701264.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    328. Evolution of human immunodeficiency virus type 1 coreceptor usage during antiretroviral Therapy: a Bayesian approach. J Virol. 2004 Oct; 78(20):11296-302. Kitchen CM, Philpott S, Burger H, Weiser B, Anastos K, Suchard MA. PMID: 15452249; PMCID: PMC521818.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansCellsCTClinical Trials
    329. Physician knowledge of herbal toxicities and adverse herb-drug interactions. Eur J Emerg Med. 2004 Aug; 11(4):193-7. Suchard JR, Suchard MA, Steinfeldt JL. PMID: 15249804.
      View in: PubMed   Mentions: 14     Fields:    Translation:Humans
    330. Alterations in the dynamics of circulating ghrelin, adiponectin, and leptin in human obesity. Proc Natl Acad Sci U S A. 2004 Jul 13; 101(28):10434-9. Yildiz BO, Suchard MA, Wong ML, McCann SM, Licinio J. PMID: 15231997; PMCID: PMC478601.
      View in: PubMed   Mentions: 101     Fields:    Translation:HumansCells
    331. Molecular evolution and mosaicism of leptospiral outer membrane proteins involves horizontal DNA transfer. J Bacteriol. 2004 May; 186(9):2818-28. Haake DA, Suchard MA, Kelley MM, Dundoo M, Alt DP, Zuerner RL. PMID: 15090524; PMCID: PMC387810.
      View in: PubMed   Mentions: 65     Fields:    Translation:Cells
    332. Hierarchical phylogenetic models for analyzing multipartite sequence data. Syst Biol. 2003 Oct; 52(5):649-64. Suchard MA, Kitchen CM, Sinsheimer JS, Weiss RE. PMID: 14530132.
      View in: PubMed   Mentions: 52     Fields:    Translation:HumansAnimalsCells
    333. Interplay of chemotaxis and chemokinesis mechanisms in bacterial dynamics. Phys Rev E Stat Nonlin Soft Matter Phys. 2003 Aug; 68(2 Pt 1):021925. D'Orsogna MR, Suchard MA, Chou T. PMID: 14525024.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    334. Testing a molecular clock without an outgroup: derivations of induced priors on branch-length restrictions in a Bayesian framework. Syst Biol. 2003 Feb; 52(1):48-54. Suchard MA, Weiss RE, Sinsheimer JS. PMID: 12554439.
      View in: PubMed   Mentions: 8     Fields:    Translation:Animals
    335. Are you my mother? Bayesian phylogenetic inference of recombination among putative parental strains. Appl Bioinformatics. 2003; 2(3):131-44. Sinsheimer JS, Suchard MA, Dorman KS, Fang F, Weiss RE. PMID: 15130798.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    336. Regulation of circulating soluble leptin receptor levels by gender, adiposity, sex steroids, and leptin: observational and interventional studies in humans. Diabetes. 2002 Jul; 51(7):2105-12. Chan JL, Blüher S, Yiannakouris N, Suchard MA, Kratzsch J, Mantzoros CS. PMID: 12086939.
      View in: PubMed   Mentions: 73     Fields:    Translation:HumansCells
    337. General practitioners' views on genetic screening for common diseases. Br J Gen Pract. 1999 Jan; 49(438):45-6. Suchard MA, Yudkin P, Sinsheimer JS, Fowler GH. PMID: 10622017; PMCID: PMC1313318.
      View in: PubMed   Mentions: 11     Fields:    Translation:Humans
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