Publications

Utilizing syndromic surveillance data for estimating levels of influenza circulation.

Author(s): Patterson-Lomba O, Van Noort S, Cowling BJ, Wallinga J, Gomes MG, Lipsitch M, Goldstein E|Journal: Am J Epidemiol|PMID: 24748609| June 2014

The availability of weekly Web-based participatory surveillance data on self-reported influenza-like illness (ILI), defined here as self-reported fever and cough/sore…

Development, calibration and performance of an HIV transmission model incorporating natural history and behavioral patterns: application in South Africa.

Author(s): McCormick AW, Abuelezam NN, Rhode ER, Hou T, Walensky RP, Pei PP, Becker JE, DiLorenzo MA, Losina E, Freedberg KA, Lipsitch M, Seage GR 3rd|Journal: PLoS One|PMID: 24867402| May 2014

Understanding HIV transmission dynamics is critical to estimating the potential population-wide impact of HIV prevention and treatment interventions. We developed…

Ethical alternatives to experiments with novel potential pandemic pathogens.

Author(s): Lipsitch M, Galvani AP|Journal: PLoS Med|PMID: 24844931| May 2014

Heterogeneity in the frequency and characteristics of homologous recombination in pneumococcal evolution.

Author(s): Mostowy R, Croucher NJ, Hanage WP, Harris SR, Bentley S, Fraser C|Journal: PLoS Genet|PMID: 24786281| May 2014

The bacterium Streptococcus pneumoniae (pneumococcus) is one of the most important human bacterial pathogens, and a leading cause of morbidity…

Cryptic ecology among host generalist Campylobacter jejuni in domestic animals.

Author(s): Sheppard SK, Cheng L, Méric G, de Haan CP, Llarena AK, Marttinen P, Vidal A, Ridley A, Clifton-Hadley F, Connor TR, Strachan NJ, Forbes K, Colles FM, Jolley KA, Bentley SD, Maiden MC, Hänninen ML, Parkhill J, Hanage WP, Corander J|Journal: Mol Ecol|PMID: 24689900| May 2014

Homologous recombination between bacterial strains is theoretically capable of preventing the separation of daughter clusters, and producing cohesive clouds of…

Within-host bacterial diversity hinders accurate reconstruction of transmission networks from genomic distance data.

Author(s): Worby CJ, Lipsitch M, Hanage WP|Journal: PLoS Comput Biol|PMID: 24675511| March 2014

The prospect of using whole genome sequence data to investigate bacterial disease outbreaks has been keenly anticipated in many quarters,…

A missing dimension in measures of vaccination impacts.

Author(s): Gomes MG, Lipsitch M, Wargo AR, Kurath G, Rebelo C, Medley GF, Coutinho A|Journal: PLoS Pathog|PMID: 24603721| March 2014

Genomic epidemiology of Neisseria gonorrhoeae with reduced susceptibility to cefixime in the USA: a retrospective observational study.

Author(s): Grad YH, Kirkcaldy RD, Trees D, Dordel J, Harris SR, Goldstein E, Weinstock H, Parkhill J, Hanage WP, Bentley S, Lipsitch M|Journal: Lancet Infect Dis|PMID: 24462211| March 2014

The emergence of Neisseria gonorrhoeae with decreased susceptibility to extended spectrum cephalosporins raises the prospect of untreatable gonorrhoea. In the…

The US 2009 A(H1N1) influenza epidemic: quantifying the impact of school openings on the reproductive number.

Author(s): Huang KE, Lipsitch M, Shaman J, Goldstein E|Journal: Epidemiology|PMID: 24434751| March 2014

There is limited information on differences in the dynamics of influenza transmission during time periods when schools are open compared…

A pluralistic account of homology: adapting the models to the data.

Author(s): Haggerty LS, Jachiet PA, Hanage WP, Fitzpatrick DA, Lopez P, O'Connell MJ, Pisani D, Wilkinson M, Bapteste E, McInerney JO|Journal: Mol Biol Evol|PMID: 24273322| March 2014

Defining homologous genes is important in many evolutionary studies but raises obvious issues. Some of these issues are conceptual and…