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  • Conference paper
    French MD, Churcher TS, Kihara J, Webster JP, Basanez M-Get al., 2008,

    MATHEMATICAL MODELS FOR SCHISTOSOMIASIS TRANSMISSION DYNAMICS AND CONTROL IN SUB-SAHARAN AFRICA: LESSONS FROM KENYA AND UGANDA

    , 57th Annual Meeting of the American-Society-of-Tropical-Medicine-and-Hygiene, Publisher: AMER SOC TROP MED & HYGIENE, Pages: 98-98, ISSN: 0002-9637
  • Journal article
    Grassly NC, Ward ME, Ferris S, Mabey DC, Bailey RLet al., 2008,

    The Natural History of Trachoma Infection and Disease in a Gambian Cohort with Frequent Follow-Up

    , PLOS NEGLECTED TROPICAL DISEASES, Vol: 2, ISSN: 1935-2735
    • Cite
    • Citations: 74
  • Journal article
    Chandrasekaran P, Dallabetta G, Loo V, Mills S, Saidel T, Adhikary R, Alary M, Lowndes CM, Boily M-C, Moore Jet al., 2008,

    Evaluation design for large-scale HIV prevention programmes: the case of Avahan, the India AIDS initiative

    , AIDS, Vol: 22, Pages: S1-S15, ISSN: 0269-9370
    • Cite
    • Citations: 107
  • Conference paper
    Rudge JW, Lu D-B, Basanez M-G, Wang T, Carabin H, Balolong E, McGarvey ST, Webster JPet al., 2008,

    ZOONOTIC TRANSMISSION OF <i>SCHISTOSOMA JAPONICUM</i> IN CHINA AND THE PHILIPPINES

    , 57th Annual Meeting of the American-Society-of-Tropical-Medicine-and-Hygiene, Publisher: AMER SOC TROP MED & HYGIENE, Pages: 96-97, ISSN: 0002-9637
  • Journal article
    Sousa-Figueiredo JC, Basanez M-G, Mgeni AF, Khamis IS, Rollinson D, Stothard JRet al., 2008,

    A parasitological survey, in rural Zanzibar, of pre-school children and their mothers for urinary schistosomiasis, soil-transmitted helminthiases and malaria, with observations on the prevalence of anaemia

    , ANNALS OF TROPICAL MEDICINE AND PARASITOLOGY, Vol: 102, Pages: 679-692, ISSN: 0003-4983
    • Cite
    • Citations: 47
  • Conference paper
    Schnall-Levin M, Chindelevitch L, Berger B, 2008,

    Inverting the viterbi algorithm: An abstract framework for structure design

    , Pages: 904-911

    Probabilistic grammatical formalisms such as hidden Markov models (HMMs) and stochastic context-free grammars (SCFGs) have been extensively studied and widely applied in a number of fields. Here, we introduce a new algorithmic problem on HMMs and SCFGs that arises naturally from protein and RNA design, and which has not been previously studied. The problem can be viewed as an inverse to the one solved by the Viterbi algorithm on HMMs or by the CKY algorithm on SCFGs. We study this problem theoretically and obtain the first algorithmic results. We prove that the problem is NP-complete, even for a 3-letter emission alphabet, via a reduction from 3-SAT, a result that has implications for the hardness of RNA secondary structure design. We then develop a number of approaches for making the problem tractable. In particular, for HMMs we develop a branch-and-bound algorithm, which can be shown to have fixed-parameter tractable worst-case running time, exponential in the number of states of the HMM but linear in the length of the structure. We also show how to cast the problem as a Mixed Integer Linear Program. Copyright 2008 by the author(s)/owner(s).
  • Journal article
    Sabatelli L, Ghani AC, Rodrigues LC, Hotez PJ, Brooker Set al., 2008,

    Modelling heterogeneity and the impact of chemotherapy and vaccination against human hookworm

    , JOURNAL OF THE ROYAL SOCIETY INTERFACE, Vol: 5, Pages: 1329-1341, ISSN: 1742-5689
    • Cite
    • Citations: 15
  • Journal article
    Rhodes CJ, Anderson RM, 2008,

    Contact rate calculation for a basic epidemic model

    , MATHEMATICAL BIOSCIENCES, Vol: 216, Pages: 56-62, ISSN: 0025-5564
    • Cite
    • Citations: 27
  • Journal article
    Riley S, 2008,

    A prospective study of spatial clusters gives valuable insights into dengue transmission.

    , PLoS Med, Vol: 5, Pages: e220-e220
  • Journal article
    Paez A, Scott DM, Volz E, 2008,

    A discrete-choice approach to modeling social influence on individual decision making

    , ENVIRONMENT AND PLANNING B-PLANNING & DESIGN, Vol: 35, Pages: 1055-1069, ISSN: 0265-8135
    • Cite
    • Citations: 88

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