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Items: 1 to 20 of 112

1.

Shared Genomic Variants: Identification of Transmission Routes Using Pathogen Deep-Sequence Data.

Worby CJ, Lipsitch M, Hanage WP.

Am J Epidemiol. 2017 Nov 15;186(10):1209-1216. doi: 10.1093/aje/kwx182.

PMID:
29149252
2.

Frequency-dependent selection in vaccine-associated pneumococcal population dynamics.

Corander J, Fraser C, Gutmann MU, Arnold B, Hanage WP, Bentley SD, Lipsitch M, Croucher NJ.

Nat Ecol Evol. 2017 Dec;1(12):1950-1960. doi: 10.1038/s41559-017-0337-x. Epub 2017 Oct 16.

PMID:
29038424
3.

Immunization, Antibiotic Use, and Pneumococcal Colonization Over a 15-Year Period.

Lee GM, Kleinman K, Pelton S, Lipsitch M, Huang SS, Lakoma M, Dutta-Linn M, Rett M, Hanage WP, Finkelstein JA.

Pediatrics. 2017 Nov;140(5). pii: e20170001. doi: 10.1542/peds.2017-0001. Epub 2017 Oct 4.

PMID:
28978716
4.

Population genetic structure, antibiotic resistance, capsule switching and evolution of invasive pneumococci before conjugate vaccination in Malawi.

Chaguza C, Cornick JE, Andam CP, Gladstone RA, Alaerts M, Musicha P, Peno C, Bar-Zeev N, Kamng'ona AW, Kiran AM, Msefula CL, McGee L, Breiman RF, Kadioglu A, French N, Heyderman RS, Hanage WP, Bentley SD, Everett DB.

Vaccine. 2017 Aug 16;35(35 Pt B):4594-4602. doi: 10.1016/j.vaccine.2017.07.009. Epub 2017 Jul 12.

5.

Speciation trajectories in recombining bacterial species.

Marttinen P, Hanage WP.

PLoS Comput Biol. 2017 Jul 3;13(7):e1005640. doi: 10.1371/journal.pcbi.1005640. eCollection 2017 Jul.

6.

Surveillance of pneumococcal colonization and invasive pneumococcal disease reveals shift in prevalent carriage serotypes in Massachusetts' children to relatively low invasiveness.

Yildirim I, Little BA, Finkelstein J, Lee G, Hanage WP, Shea K, Pelton SI; T; he Massachusetts Dept. of Public Health.

Vaccine. 2017 Jul 13;35(32):4002-4009. doi: 10.1016/j.vaccine.2017.05.077. Epub 2017 Jun 20.

PMID:
28645717
7.

Penicillin Resistance of Nonvaccine Type Pneumococcus before and after PCV13 Introduction, United States.

Andam CP, Worby CJ, Gierke R, McGee L, Pilishvili T, Hanage WP.

Emerg Infect Dis. 2017 Jun;23(6):1012-1015. doi: 10.3201/eid2306.161331.

8.

Efficient Inference of Recent and Ancestral Recombination within Bacterial Populations.

Mostowy R, Croucher NJ, Andam CP, Corander J, Hanage WP, Marttinen P.

Mol Biol Evol. 2017 May 1;34(5):1167-1182. doi: 10.1093/molbev/msx066.

9.

Genomic Epidemiology of Penicillin-Nonsusceptible Pneumococci with Nonvaccine Serotypes Causing Invasive Disease in the United States.

Andam CP, Mitchell PK, Callendrello A, Chang Q, Corander J, Chaguza C, McGee L, Beall BW, Hanage WP.

J Clin Microbiol. 2017 Apr;55(4):1104-1115. doi: 10.1128/JCM.02453-16. Epub 2017 Jan 18.

10.

Multi-institute analysis of carbapenem resistance reveals remarkable diversity, unexplained mechanisms, and limited clonal outbreaks.

Cerqueira GC, Earl AM, Ernst CM, Grad YH, Dekker JP, Feldgarden M, Chapman SB, Reis-Cunha JL, Shea TP, Young S, Zeng Q, Delaney ML, Kim D, Peterson EM, O'Brien TF, Ferraro MJ, Hooper DC, Huang SS, Kirby JE, Onderdonk AB, Birren BW, Hung DT, Cosimi LA, Wortman JR, Murphy CI, Hanage WP.

Proc Natl Acad Sci U S A. 2017 Jan 31;114(5):1135-1140. doi: 10.1073/pnas.1616248114. Epub 2017 Jan 17.

11.

Diverse evolutionary patterns of pneumococcal antigens identified by pangenome-wide immunological screening.

Croucher NJ, Campo JJ, Le TQ, Liang X, Bentley SD, Hanage WP, Lipsitch M.

Proc Natl Acad Sci U S A. 2017 Jan 17;114(3):E357-E366. doi: 10.1073/pnas.1613937114. Epub 2017 Jan 4.

12.

Association of Pneumococcal Protein Antigen Serology With Age and Antigenic Profile of Colonizing Isolates.

Azarian T, Grant LR, Georgieva M, Hammitt LL, Reid R, Bentley SD, Goldblatt D, Santosham M, Weatherholtz R, Burbidge P, Goklish N, Thompson CM, Hanage WP, O'Brien KL, Lipsitch M.

J Infect Dis. 2017 Mar 1;215(5):713-722. doi: 10.1093/infdis/jiw628.

PMID:
28035010
13.

Substitutions of short heterologous DNA segments of intragenomic or extragenomic origins produce clustered genomic polymorphisms.

Harms K, Lunnan A, Hülter N, Mourier T, Vinner L, Andam CP, Marttinen P, Fridholm H, Hansen AJ, Hanage WP, Nielsen KM, Willerslev E, Johnsen PJ.

Proc Natl Acad Sci U S A. 2016 Dec 27;113(52):15066-15071. doi: 10.1073/pnas.1615819114. Epub 2016 Dec 12.

14.

Understanding pneumococcal serotype 1 biology through population genomic analysis.

Chaguza C, Cornick JE, Harris SR, Andam CP, Bricio-Moreno L, Yang M, Yalcin F, Ousmane S, Govindpersad S, Senghore M, Ebruke C, Du Plessis M, Kiran AM, Pluschke G, Sigauque B, McGee L, Klugman KP, Turner P, Corander J, Parkhill J, Collard JM, Antonio M, von Gottberg A, Heyderman RS, French N, Kadioglu A, Hanage WP, Everett DB, Bentley SD; PAGe Consortium.

BMC Infect Dis. 2016 Nov 8;16(1):649.

15.

Recombination in Streptococcus pneumoniae Lineages Increase with Carriage Duration and Size of the Polysaccharide Capsule.

Chaguza C, Andam CP, Harris SR, Cornick JE, Yang M, Bricio-Moreno L, Kamng'ona AW, Parkhill J, French N, Heyderman RS, Kadioglu A, Everett DB, Bentley SD, Hanage WP.

MBio. 2016 Sep 27;7(5). pii: e01053-16. doi: 10.1128/mBio.01053-16.

16.

Intrahost Evolution of Methicillin-Resistant Staphylococcus aureus USA300 Among Individuals With Reoccurring Skin and Soft-Tissue Infections.

Azarian T, Daum RS, Petty LA, Steinbeck JL, Yin Z, Nolan D, Boyle-Vavra S, Hanage WP, Salemi M, David MZ.

J Infect Dis. 2016 Sep 15;214(6):895-905. doi: 10.1093/infdis/jiw242. Epub 2016 Jun 10.

17.

Not So Simple After All: Bacteria, Their Population Genetics, and Recombination.

Hanage WP.

Cold Spring Harb Perspect Biol. 2016 Jul 1;8(7). pii: a018069. doi: 10.1101/cshperspect.a018069. Review.

PMID:
27091940
18.

The impact of host metapopulation structure on the population genetics of colonizing bacteria.

Numminen E, Gutmann M, Shubin M, Marttinen P, Méric G, van Schaik W, Coque TM, Baquero F, Willems RJ, Sheppard SK, Feil EJ, Hanage WP, Corander J.

J Theor Biol. 2016 May 7;396:53-62. doi: 10.1016/j.jtbi.2016.02.019. Epub 2016 Feb 23.

PMID:
26916623
19.

Interim results of an ecological experiment - Conjugate vaccination against the pneumococcus and serotype replacement.

Hausdorff WP, Hanage WP.

Hum Vaccin Immunother. 2016;12(2):358-74. doi: 10.1080/21645515.2015.1118593. Review. Erratum in: Hum Vaccin Immunother. 2016 Sep;12 (9):2478-81.

20.

Identifying the effect of patient sharing on between-hospital genetic differentiation of methicillin-resistant Staphylococcus aureus.

Chang HH, Dordel J, Donker T, Worby CJ, Feil EJ, Hanage WP, Bentley SD, Huang SS, Lipsitch M.

Genome Med. 2016 Feb 13;8(1):18. doi: 10.1186/s13073-016-0274-3.

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