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Items: 1 to 50 of 122

1.

Molecular diagnosis of vaginitis: comparing qPCR and microbiome profiling approaches to current microscopy scoring.

Lynch T, Peirano G, Lloyd T, Read R, Carter J, Chu A, Shaman JA, Jarvis JP, Diamond E, Ijaz UZ, Church D.

J Clin Microbiol. 2019 Jul 17. pii: JCM.00300-19. doi: 10.1128/JCM.00300-19. [Epub ahead of print]

PMID:
31315951
2.

Comment on: 'Antibiotic footprint' as a communication tool to aid reduction of antibiotic consumption.

Lipsitch M, Shaman J.

J Antimicrob Chemother. 2019 Jul 17. pii: dkz320. doi: 10.1093/jac/dkz320. [Epub ahead of print] No abstract available.

PMID:
31314102
3.

Consequences of CYP2D6 Copy-Number Variation for Pharmacogenomics in Psychiatry.

Jarvis JP, Peter AP, Shaman JA.

Front Psychiatry. 2019 Jun 20;10:432. doi: 10.3389/fpsyt.2019.00432. eCollection 2019. Review.

4.

Pathobiological features favouring the intercontinental dissemination of highly pathogenic avian influenza virus.

Li X, Xu B, Shaman J.

R Soc Open Sci. 2019 May 8;6(5):190276. doi: 10.1098/rsos.190276. eCollection 2019 May.

5.

Correction: Geospatial characteristics of measles transmission in China during 2005-2014.

Yang W, Wen L, Li SL, Chen K, Zhang WY, Shaman J.

PLoS Comput Biol. 2019 Jun 14;15(6):e1007144. doi: 10.1371/journal.pcbi.1007144. eCollection 2019 Jun.

6.

Improved forecasts of influenza-associated hospitalization rates with Google Search Trends.

Kandula S, Pei S, Shaman J.

J R Soc Interface. 2019 Jun 28;16(155):20190080. doi: 10.1098/rsif.2019.0080. Epub 2019 Jun 12.

7.

Spatiotemporal clustering of suicides in the US from 1999 to 2016: a spatial epidemiological approach.

Sy KTL, Shaman J, Kandula S, Pei S, Gould M, Keyes KM.

Soc Psychiatry Psychiatr Epidemiol. 2019 Jun 8. doi: 10.1007/s00127-019-01736-4. [Epub ahead of print]

PMID:
31177308
8.

arcasHLA: high resolution HLA typing from RNAseq.

Orenbuch R, Filip I, Comito D, Shaman J, Pe'er I, Rabadan R.

Bioinformatics. 2019 Jun 7. pii: btz474. doi: 10.1093/bioinformatics/btz474. [Epub ahead of print]

PMID:
31173059
9.

The Impact of Environmental Transmission and Epidemiological Features on the Geographical Translocation of Highly Pathogenic Avian Influenza Virus.

Li X, Xu B, Shaman J.

Int J Environ Res Public Health. 2019 May 28;16(11). pii: E1890. doi: 10.3390/ijerph16111890.

10.

Rates of asymptomatic respiratory virus infection across age groups.

Galanti M, Birger R, Ud-Dean M, Filip I, Morita H, Comito D, Anthony S, Freyer GA, Ibrahim S, Lane B, Matienzo N, Ligon C, Rabadan R, Shittu A, Tagne E, Shaman J.

Epidemiol Infect. 2019 Jan;147:e176. doi: 10.1017/S0950268819000505.

11.

Modeling and Surveillance of Reporting Delays of Mosquitoes and Humans Infected With West Nile Virus and Associations With Accuracy of West Nile Virus Forecasts.

DeFelice NB, Birger R, DeFelice N, Gagner A, Campbell SR, Romano C, Santoriello M, Henke J, Wittie J, Cole B, Kaiser C, Shaman J.

JAMA Netw Open. 2019 Apr 5;2(4):e193175. doi: 10.1001/jamanetworkopen.2019.3175.

12.

Simulation of four respiratory viruses and inference of epidemiological parameters.

Reis J, Shaman J.

Infect Dis Model. 2018 Mar 19;3:23-34. doi: 10.1016/j.idm.2018.03.006. eCollection 2018.

13.

Predictability in process-based ensemble forecast of influenza.

Pei S, Cane MA, Shaman J.

PLoS Comput Biol. 2019 Feb 28;15(2):e1006783. doi: 10.1371/journal.pcbi.1006783. eCollection 2019 Feb.

14.

Development and validation of influenza forecasting for 64 temperate and tropical countries.

Kramer SC, Shaman J.

PLoS Comput Biol. 2019 Feb 27;15(2):e1006742. doi: 10.1371/journal.pcbi.1006742. eCollection 2019 Feb.

15.

Near-term forecasts of influenza-like illness: An evaluation of autoregressive time series approaches.

Kandula S, Shaman J.

Epidemics. 2019 Jun;27:41-51. doi: 10.1016/j.epidem.2019.01.002. Epub 2019 Jan 17.

16.

Longitudinal active sampling for respiratory viral infections across age groups.

Galanti M, Birger R, Ud-Dean M, Filip I, Morita H, Comito D, Anthony S, Freyer GA, Ibrahim S, Lane B, Ligon C, Rabadan R, Shittu A, Tagne E, Shaman J.

Influenza Other Respir Viruses. 2019 May;13(3):226-232. doi: 10.1111/irv.12629. Epub 2019 Feb 15.

17.

Characteristics of measles epidemics in China (1951-2004) and implications for elimination: A case study of three key locations.

Yang W, Li J, Shaman J.

PLoS Comput Biol. 2019 Feb 4;15(2):e1006806. doi: 10.1371/journal.pcbi.1006806. eCollection 2019 Feb.

18.

Collaborative efforts to forecast seasonal influenza in the United States, 2015-2016.

McGowan CJ, Biggerstaff M, Johansson M, Apfeldorf KM, Ben-Nun M, Brooks L, Convertino M, Erraguntla M, Farrow DC, Freeze J, Ghosh S, Hyun S, Kandula S, Lega J, Liu Y, Michaud N, Morita H, Niemi J, Ramakrishnan N, Ray EL, Reich NG, Riley P, Shaman J, Tibshirani R, Vespignani A, Zhang Q, Reed C; Influenza Forecasting Working Group.

Sci Rep. 2019 Jan 24;9(1):683. doi: 10.1038/s41598-018-36361-9.

19.

A collaborative multiyear, multimodel assessment of seasonal influenza forecasting in the United States.

Reich NG, Brooks LC, Fox SJ, Kandula S, McGowan CJ, Moore E, Osthus D, Ray EL, Tushar A, Yamana TK, Biggerstaff M, Johansson MA, Rosenfeld R, Shaman J.

Proc Natl Acad Sci U S A. 2019 Feb 19;116(8):3146-3154. doi: 10.1073/pnas.1812594116. Epub 2019 Jan 15.

20.

Rotavirus Gastroenteritis Infection Among Children Vaccinated and Unvaccinated With Rotavirus Vaccine in Southern China: A Population-Based Assessment.

Fu C, Dong Z, Shen J, Yang Z, Liao Y, Hu W, Pei S, Shaman J.

JAMA Netw Open. 2018 Aug 3;1(4):e181382. doi: 10.1001/jamanetworkopen.2018.1382.

21.

Inference and control of the nosocomial transmission of methicillin-resistant Staphylococcus aureus.

Pei S, Morone F, Liljeros F, Makse H, Shaman JL.

Elife. 2018 Dec 18;7. pii: e40977. doi: 10.7554/eLife.40977.

22.

Correction for Birger et al., "Asymptomatic Shedding of Respiratory Virus among an Ambulatory Population across Seasons".

Birger R, Morita H, Comito D, Filip I, Galanti M, Lane B, Ligon C, Rosenbloom D, Shittu A, Ud-Dean M, Desalle R, Planet P, Shaman J.

mSphere. 2018 Dec 12;3(6). pii: e00667-18. doi: 10.1128/mSphere.00667-18. No abstract available.

23.

Pharmacogenetic guidelines and decision support tools for depression treatment: application to late-life.

Chang DD, Eyreeuro HA, Abbott R, Coudreaut M, Baune BT, Shaman JA, Lavretsky H, Lenze EJ, Merrill DA, Singh AB, Mulsant BH, Reynolds CF 3rd, Müller DJ, Bousman C.

Pharmacogenomics. 2018 Nov;19(16):1269-1284. doi: 10.2217/pgs-2018-0099.

PMID:
30422065
24.
25.

Assessing the Use of Influenza Forecasts and Epidemiological Modeling in Public Health Decision Making in the United States.

Doms C, Kramer SC, Shaman J.

Sci Rep. 2018 Aug 17;8(1):12406. doi: 10.1038/s41598-018-30378-w.

26.

Evaluation of mechanistic and statistical methods in forecasting influenza-like illness.

Kandula S, Yamana T, Pei S, Yang W, Morita H, Shaman J.

J R Soc Interface. 2018 Jul;15(144). pii: 20180174. doi: 10.1098/rsif.2018.0174.

27.

Influenza forecast optimization when using different surveillance data types and geographic scale.

Morita H, Kramer S, Heaney A, Gil H, Shaman J.

Influenza Other Respir Viruses. 2018 Nov;12(6):755-764. doi: 10.1111/irv.12594. Epub 2018 Aug 21.

28.

Superensemble forecast of respiratory syncytial virus outbreaks at national, regional, and state levels in the United States.

Reis J, Yamana T, Kandula S, Shaman J.

Epidemics. 2019 Mar;26:1-8. doi: 10.1016/j.epidem.2018.07.001. Epub 2018 Jul 9.

29.

Asymptomatic Shedding of Respiratory Virus among an Ambulatory Population across Seasons.

Birger R, Morita H, Comito D, Filip I, Galanti M, Lane B, Ligon C, Rosenbloom D, Shittu A, Ud-Dean M, Desalle R, Planet P, Shaman J.

mSphere. 2018 Jul 11;3(4). pii: e00249-18. doi: 10.1128/mSphere.00249-18. Erratum in: mSphere. 2018 Dec 12;3(6):.

30.

Association of spring-summer hydrology and meteorology with human West Nile virus infection in West Texas, USA, 2002-2016.

Ukawuba I, Shaman J.

Parasit Vectors. 2018 Apr 4;11(1):224. doi: 10.1186/s13071-018-2781-0.

31.

Transmission dynamics of influenza in two major cities of Uganda.

Yang W, Cummings MJ, Bakamutumaho B, Kayiwa J, Owor N, Namagambo B, Byaruhanga T, Lutwama JJ, O'Donnell MR, Shaman J.

Epidemics. 2018 Sep;24:43-48. doi: 10.1016/j.epidem.2018.03.002. Epub 2018 Mar 19.

32.

Dynamics of influenza in tropical Africa: Temperature, humidity, and co-circulating (sub)types.

Yang W, Cummings MJ, Bakamutumaho B, Kayiwa J, Owor N, Namagambo B, Byaruhanga T, Lutwama JJ, O'Donnell MR, Shaman J.

Influenza Other Respir Viruses. 2018 Jul;12(4):446-456. doi: 10.1111/irv.12556. Epub 2018 Apr 17.

33.

Use of temperature to improve West Nile virus forecasts.

DeFelice NB, Schneider ZD, Little E, Barker C, Caillouet KA, Campbell SR, Damian D, Irwin P, Jones HMP, Townsend J, Shaman J.

PLoS Comput Biol. 2018 Mar 9;14(3):e1006047. doi: 10.1371/journal.pcbi.1006047. eCollection 2018 Mar.

34.

Results from the second year of a collaborative effort to forecast influenza seasons in the United States.

Biggerstaff M, Johansson M, Alper D, Brooks LC, Chakraborty P, Farrow DC, Hyun S, Kandula S, McGowan C, Ramakrishnan N, Rosenfeld R, Shaman J, Tibshirani R, Tibshirani RJ, Vespignani A, Yang W, Zhang Q, Reed C.

Epidemics. 2018 Sep;24:26-33. doi: 10.1016/j.epidem.2018.02.003. Epub 2018 Feb 24.

35.

Conjunction of factors triggering waves of seasonal influenza.

Chattopadhyay I, Kiciman E, Elliott JW, Shaman JL, Rzhetsky A.

Elife. 2018 Feb 27;7. pii: e30756. doi: 10.7554/eLife.30756.

36.

Forecasting the spatial transmission of influenza in the United States.

Pei S, Kandula S, Yang W, Shaman J.

Proc Natl Acad Sci U S A. 2018 Mar 13;115(11):2752-2757. doi: 10.1073/pnas.1708856115. Epub 2018 Feb 26.

37.

Pandemic preparedness and forecast.

Shaman J.

Nat Microbiol. 2018 Mar;3(3):265-267. doi: 10.1038/s41564-018-0117-7. No abstract available.

PMID:
29463927
38.

Asymptomatic Summertime Shedding of Respiratory Viruses.

Shaman J, Morita H, Birger R, Boyle M, Comito D, Lane B, Ligon C, Smith H, Desalle R, Planet P.

J Infect Dis. 2018 Mar 13;217(7):1074-1077. doi: 10.1093/infdis/jix685.

PMID:
29300926
39.

The use of ambient humidity conditions to improve influenza forecast.

Shaman J, Kandula S, Yang W, Karspeck A.

PLoS Comput Biol. 2017 Nov 16;13(11):e1005844. doi: 10.1371/journal.pcbi.1005844. eCollection 2017 Nov.

40.

Emergence, Epidemiology, and Transmission Dynamics of 2009 Pandemic A/H1N1 Influenza in Kampala, Uganda, 2009-2015.

Cummings MJ, Bakamutumaho B, Yang W, Wamala JF, Kayiwa J, Owor N, Namagambo B, Byaruhanga T, Wolf A, Lutwama JJ, Shaman J, O'Donnell MR.

Am J Trop Med Hyg. 2018 Jan;98(1):203-206. doi: 10.4269/ajtmh.17-0524. Epub 2018 Jan 1.

41.

Subregional Nowcasts of Seasonal Influenza Using Search Trends.

Kandula S, Hsu D, Shaman J.

J Med Internet Res. 2017 Nov 6;19(11):e370. doi: 10.2196/jmir.7486.

42.

Individual versus superensemble forecasts of seasonal influenza outbreaks in the United States.

Yamana TK, Kandula S, Shaman J.

PLoS Comput Biol. 2017 Nov 6;13(11):e1005801. doi: 10.1371/journal.pcbi.1005801. eCollection 2017 Nov.

43.

The Need for Climate and Health Education.

Shaman J, Knowlton K.

Am J Public Health. 2018 Apr;108(S2):S66-S67. doi: 10.2105/AJPH.2017.304045. Epub 2017 Oct 26. No abstract available.

44.

Counteracting structural errors in ensemble forecast of influenza outbreaks.

Pei S, Shaman J.

Nat Commun. 2017 Oct 13;8(1):925. doi: 10.1038/s41467-017-01033-1.

45.

Local environmental and meteorological conditions influencing the invasive mosquito Ae. albopictus and arbovirus transmission risk in New York City.

Little E, Bajwa W, Shaman J.

PLoS Negl Trop Dis. 2017 Aug 23;11(8):e0005828. doi: 10.1371/journal.pntd.0005828. eCollection 2017 Aug.

46.

Pre-vaccination evolution of antibodies among infants 0, 3 and 6months of age: A longitudinal analysis of measles, enterovirus 71 and coxsackievirus 16.

Fu C, Shen J, Lu L, Li Y, Cao Y, Wang M, Pei S, Yang Z, Guo Q, Shaman J.

Vaccine. 2017 Jul 5;35(31):3817-3822. doi: 10.1016/j.vaccine.2017.06.002. Epub 2017 Jun 10.

47.

Geospatial characteristics of measles transmission in China during 2005-2014.

Yang W, Wen L, Li SL, Chen K, Zhang WY, Shaman J.

PLoS Comput Biol. 2017 Apr 4;13(4):e1005474. doi: 10.1371/journal.pcbi.1005474. eCollection 2017 Apr. Erratum in: PLoS Comput Biol. 2019 Jun 14;15(6):e1007144.

48.

Efficient collective influence maximization in cascading processes with first-order transitions.

Pei S, Teng X, Shaman J, Morone F, Makse HA.

Sci Rep. 2017 Mar 28;7:45240. doi: 10.1038/srep45240.

49.

Ensemble forecast of human West Nile virus cases and mosquito infection rates.

DeFelice NB, Little E, Campbell SR, Shaman J.

Nat Commun. 2017 Feb 24;8:14592. doi: 10.1038/ncomms14592.

50.

Inference and forecast of H7N9 influenza in China, 2013 to 2015.

Li R, Bai Y, Heaney A, Kandula S, Cai J, Zhao X, Xu B, Shaman J.

Euro Surveill. 2017 Feb 16;22(7). doi: 10.2807/1560-7917.ES.2017.22.7.30462.

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