Publications

Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011.

Author(s): Grad YH, Lipsitch M, Feldgarden M, Arachchi HM, Cerqueira GC, FitzGerald M, Godfrey P, Haas BJ, Murphy CI, Russ C, Sykes S, Walker BJ, Wortman JR, Young S, Zeng Q, Abouelleil A, Bochicchio J, Chauvin S, Desmet T, Gujja S, McCowan C, Montmayeur A, Steelman S, Frimodt-Møller J, Petersen AM, Struve C, Krogfelt KA, Bingen E, Weill FX, Lander ES, Nusbaum C, Birren BW, Hung DT, Hanage WP|Journal: Proc Natl Acad Sci U S A|PMID: 22315421| February 2012

The degree to which molecular epidemiology reveals information about the sources and transmission patterns of an outbreak depends on the…

Apparent declining efficacy in randomized trials: examples of the Thai RV144 HIV vaccine and South African CAPRISA 004 microbicide trials.

Author(s): O'Hagan JJ, Hernán MA, Walensky RP, Lipsitch M|Journal: AIDS|PMID: 22045345| January 2012

Evolution of the multi-domain structures of virulence genes in the human malaria parasite, Plasmodium falciparum.

Author(s): Buckee CO, Recker M|Journal: PLoS Comput Biol|PMID: 22511852| January 2012

The var gene family of Plasmodium falciparum encodes the immunodominant variant surface antigens PfEMP1. These highly polymorphic proteins are important…

Secular trends in Helicobacter pylori seroprevalence in adults in the United States: evidence for sustained race/ethnic disparities.

Author(s): Grad YH, Lipsitch M, Aiello AE|Journal: Am J Epidemiol|PMID: 22085628| January 2012

Helicobacter pylori seroprevalence levels in US adults participating in the continuous National Health and Nutrition Examination Survey (1999-2000) increased with…

Detection of recombination events in bacterial genomes from large population samples.

Author(s): Marttinen P, Hanage WP, Croucher NJ, Connor TR, Harris SR, Bentley SD, Corander J|Journal: Nucleic Acids Res|PMID: 22064866| January 2012

Analysis of important human pathogen populations is currently under transition toward whole-genome sequencing of growing numbers of samples collected on…

Searching for sharp drops in the incidence of pandemic A/H1N1 influenza by single year of age.

Author(s): Jacobs JH, Archer BN, Baker MG, Cowling BJ, Heffernan RT, Mercer G, Uez O, Hanshaoworakul W, Viboud C, Schwartz J, Tchetgen Tchetgen E, Lipsitch M|Journal: PLoS One|PMID: 22876316| January 2012

During the 2009 H1N1 pandemic (pH1N1), morbidity and mortality sparing was observed among the elderly population; it was hypothesized that…

Changes in severity of 2009 pandemic A/H1N1 influenza in England: a Bayesian evidence synthesis.

Author(s): Presanis AM, Pebody RG, Paterson BJ, Tom BD, Birrell PJ, Charlett A, Lipsitch M, De Angelis D|Journal: BMJ|PMID: 21903689| September 2011

To assess the impact of the 2009 A/H1N1 influenza pandemic in England during the two waves of activity up to…

Vaccine production, distribution, access, and uptake.

Author(s): Smith J, Lipsitch M, Almond JW|Journal: Lancet|PMID: 21664680| July 2011

For human vaccines to be available on a global scale, complex production methods, meticulous quality control, and reliable distribution channels…

Improving the evidence base for decision making during a pandemic: the example of 2009 influenza A/H1N1.

Author(s): Lipsitch M, Finelli L, Heffernan RT, Leung GM, Redd SC, 2009 H1n1 Surveillance Group.|Journal: Biosecur Bioterror|PMID: 21612363| June 2011

This article synthesizes and extends discussions held during an international meeting on "Surveillance for Decision Making: The Example of 2009…

Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection.

Author(s): Ford CB, Lin PL, Chase MR, Shah RR, Iartchouk O, Galagan J, Mohaideen N, Ioerger TR, Sacchettini JC, Lipsitch M, Flynn JL, Fortune SM|Journal: Nat Genet|PMID: 21516081| May 2011

Tuberculosis poses a global health emergency, which has been compounded by the emergence of drug-resistant Mycobacterium tuberculosis (Mtb) strains. We…