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Items: 42

1.

Age-specific differences in the dynamics of protective immunity to influenza.

Ranjeva S, Subramanian R, Fang VJ, Leung GM, Ip DKM, Perera RAPM, Peiris JSM, Cowling BJ, Cobey S.

Nat Commun. 2019 Apr 10;10(1):1660. doi: 10.1038/s41467-019-09652-6.

2.

Influenza Virus Vaccination Elicits Poorly Adapted B Cell Responses in Elderly Individuals.

Henry C, Zheng NY, Huang M, Cabanov A, Rojas KT, Kaur K, Andrews SF, Palm AE, Chen YQ, Li Y, Hoskova K, Utset HA, Vieira MC, Wrammert J, Ahmed R, Holden-Wiltse J, Topham DJ, Treanor JJ, Ertl HC, Schmader KE, Cobey S, Krammer F, Hensley SE, Greenberg H, He XS, Wilson PC.

Cell Host Microbe. 2019 Mar 13;25(3):357-366.e6. doi: 10.1016/j.chom.2019.01.002. Epub 2019 Feb 19.

PMID:
30795982
3.

Repeated Vaccination May Protect Children From Influenza Infection.

Cobey S.

JAMA Netw Open. 2018 Oct 5;1(6):e183730. doi: 10.1001/jamanetworkopen.2018.3730. No abstract available.

PMID:
30646259
4.

Spec-seq unveils transcriptional subpopulations of antibody-secreting cells following influenza vaccination.

Neu KE, Guthmiller JJ, Huang M, La J, Vieira MC, Kim K, Zheng NY, Cortese M, Tepora ME, Hamel NJ, Rojas KT, Henry C, Shaw D, Dulberger CL, Pulendran B, Cobey S, Khan AA, Wilson PC.

J Clin Invest. 2019 Jan 2;129(1):93-105. doi: 10.1172/JCI121341. Epub 2018 Nov 19.

5.

Use of an individual-based model of pneumococcal carriage for planning a randomized trial of a whole-cell vaccine.

Cai FY, Fussell T, Cobey S, Lipsitch M.

PLoS Comput Biol. 2018 Oct 1;14(10):e1006333. doi: 10.1371/journal.pcbi.1006333. eCollection 2018 Oct.

6.

Estimating Vaccine-Driven Selection in Seasonal Influenza.

Wen FT, Bell SM, Bedford T, Cobey S.

Viruses. 2018 Sep 18;10(9). pii: E509. doi: 10.3390/v10090509.

7.

Characterization of the immunologic repertoire: A quick start guide.

Wilson PC, Cobey S.

Immunol Rev. 2018 Jul;284(1):5-8. doi: 10.1111/imr.12685. No abstract available.

PMID:
29944764
8.

Immune History and Influenza Vaccine Effectiveness.

Lewnard JA, Cobey S.

Vaccines (Basel). 2018 May 21;6(2). pii: E28. doi: 10.3390/vaccines6020028. Review.

9.

Selection and Neutral Mutations Drive Pervasive Mutability Losses in Long-Lived Anti-HIV B-Cell Lineages.

Vieira MC, Zinder D, Cobey S.

Mol Biol Evol. 2018 May 1;35(5):1135-1146. doi: 10.1093/molbev/msy024.

10.

Response to Skowronski and De Serres.

Cobey S, Grad YH.

Clin Infect Dis. 2018 Oct 15;67(9):1476. doi: 10.1093/cid/ciy352. No abstract available.

PMID:
29688302
11.

Poor Immunogenicity, Not Vaccine Strain Egg Adaptation, May Explain the Low H3N2 Influenza Vaccine Effectiveness in 2012-2013.

Cobey S, Gouma S, Parkhouse K, Chambers BS, Ertl HC, Schmader KE, Halpin RA, Lin X, Stockwell TB, Das SR, Landon E, Tesic V, Youngster I, Pinsky BA, Wentworth DE, Hensley SE, Grad YH.

Clin Infect Dis. 2018 Jul 18;67(3):327-333. doi: 10.1093/cid/ciy097.

12.

Recurring infection with ecologically distinct HPV types can explain high prevalence and diversity.

Ranjeva SL, Baskerville EB, Dukic V, Villa LL, Lazcano-Ponce E, Giuliano AR, Dwyer G, Cobey S.

Proc Natl Acad Sci U S A. 2017 Dec 19;114(51):13573-13578. doi: 10.1073/pnas.1714712114. Epub 2017 Dec 5.

13.

Contemporary H3N2 influenza viruses have a glycosylation site that alters binding of antibodies elicited by egg-adapted vaccine strains.

Zost SJ, Parkhouse K, Gumina ME, Kim K, Diaz Perez S, Wilson PC, Treanor JJ, Sant AJ, Cobey S, Hensley SE.

Proc Natl Acad Sci U S A. 2017 Nov 21;114(47):12578-12583. doi: 10.1073/pnas.1712377114. Epub 2017 Nov 6.

14.

Sick if you do, sick if you don't.

Cobey S.

Nat Ecol Evol. 2017 Nov;1(11):1602-1603. doi: 10.1038/s41559-017-0342-0. No abstract available.

PMID:
28963490
15.

Host population structure and treatment frequency maintain balancing selection on drug resistance.

Cobey S, Baskerville EB, Colijn C, Hanage W, Fraser C, Lipsitch M.

J R Soc Interface. 2017 Aug;14(133). pii: 20170295. doi: 10.1098/rsif.2017.0295.

16.

Does influenza drive absolute humidity?

Baskerville EB, Cobey S.

Proc Natl Acad Sci U S A. 2017 Mar 21;114(12):E2270-E2271. doi: 10.1073/pnas.1700369114. Epub 2017 Mar 15. No abstract available.

17.

Immune history and influenza virus susceptibility.

Cobey S, Hensley SE.

Curr Opin Virol. 2017 Feb;22:105-111. doi: 10.1016/j.coviro.2016.12.004. Epub 2017 Jan 12. Review.

18.

Limits to Causal Inference with State-Space Reconstruction for Infectious Disease.

Cobey S, Baskerville EB.

PLoS One. 2016 Dec 28;11(12):e0169050. doi: 10.1371/journal.pone.0169050. eCollection 2016.

19.

Gel-coated tubes extend above-freezing storage of honey bee (Apis mellifera) semen to 439 days with production of fertilised offspring.

Hopkins BK, Cobey SW, Herr C, Sheppard WS.

Reprod Fertil Dev. 2017 Sep;29(10):1944-1949. doi: 10.1071/RD16087.

PMID:
27977389
20.

Viral factors in influenza pandemic risk assessment.

Lipsitch M, Barclay W, Raman R, Russell CJ, Belser JA, Cobey S, Kasson PM, Lloyd-Smith JO, Maurer-Stroh S, Riley S, Beauchemin CA, Bedford T, Friedrich TC, Handel A, Herfst S, Murcia PR, Roche B, Wilke CO, Russell CA.

Elife. 2016 Nov 11;5. pii: e18491. doi: 10.7554/eLife.18491.

21.

Explaining the geographical origins of seasonal influenza A (H3N2).

Wen F, Bedford T, Cobey S.

Proc Biol Sci. 2016 Sep 14;283(1838). pii: 20161312. doi: 10.1098/rspb.2016.1312.

22.

Trade-offs in antibody repertoires to complex antigens.

Childs LM, Baskerville EB, Cobey S.

Philos Trans R Soc Lond B Biol Sci. 2015 Sep 5;370(1676). pii: 20140245. doi: 10.1098/rstb.2014.0245.

23.

The evolution within us.

Cobey S, Wilson P, Matsen FA 4th.

Philos Trans R Soc Lond B Biol Sci. 2015 Sep 5;370(1676). pii: 20140235. doi: 10.1098/rstb.2014.0235. Review.

24.

K-Pax2: Bayesian identification of cluster-defining amino acid positions in large sequence datasets.

Pessia A, Grad Y, Cobey S, Puranen JS, Corander J.

Microb Genom. 2015 Jul 15;1(1):e000025. doi: 10.1099/mgen.0.000025. eCollection 2015 Jul.

25.

Fighting microbial drug resistance: a primer on the role of evolutionary biology in public health.

Perron GG, Inglis RF, Pennings PS, Cobey S.

Evol Appl. 2015 Mar;8(3):211-22. doi: 10.1111/eva.12254. Epub 2015 Mar 23.

26.

Pathogen evolution and the immunological niche.

Cobey S.

Ann N Y Acad Sci. 2014 Jul;1320:1-15. doi: 10.1111/nyas.12493.

27.

The Hospital Microbiome Project: Meeting report for the 2nd Hospital Microbiome Project, Chicago, USA, January 15(th), 2013.

Shogan BD, Smith DP, Packman AI, Kelley ST, Landon EM, Bhangar S, Vora GJ, Jones RM, Keegan K, Stephens B, Ramos T, Kirkup BC Jr, Levin H, Rosenthal M, Foxman B, Chang EB, Siegel J, Cobey S, An G, Alverdy JC, Olsiewski PJ, Martin MO, Marrs R, Hernandez M, Christley S, Morowitz M, Weber S, Gilbert J.

Stand Genomic Sci. 2013 Jul 25;8(3):571-9. doi: 10.4056/sigs.4187859. eCollection 2013 Jul 30. No abstract available.

28.

Improving influenza vaccine virus selection: report of a WHO informal consultation held at WHO headquarters, Geneva, Switzerland, 14-16 June 2010.

Ampofo WK, Baylor N, Cobey S, Cox NJ, Daves S, Edwards S, Ferguson N, Grohmann G, Hay A, Katz J, Kullabutr K, Lambert L, Levandowski R, Mishra AC, Monto A, Siqueira M, Tashiro M, Waddell AL, Wairagkar N, Wood J, Zambon M, Zhang W.

Influenza Other Respir Viruses. 2013 Sep;7 Suppl 2:52-3. doi: 10.1111/irv.12081. No abstract available.

29.

Pathogen diversity and hidden regimes of apparent competition.

Cobey S, Lipsitch M.

Am Nat. 2013 Jan;181(1):12-24. doi: 10.1086/668598. Epub 2012 Nov 27.

30.

Niche and neutral effects of acquired immunity permit coexistence of pneumococcal serotypes.

Cobey S, Lipsitch M.

Science. 2012 Mar 16;335(6074):1376-80. doi: 10.1126/science.1215947. Epub 2012 Mar 1.

31.

Anticipating the species jump: surveillance for emerging viral threats.

Flanagan ML, Parrish CR, Cobey S, Glass GE, Bush RM, Leighton TJ.

Zoonoses Public Health. 2012 May;59(3):155-63. doi: 10.1111/j.1863-2378.2011.01439.x. Epub 2011 Sep 14. Review.

32.

Improving influenza vaccine virus selection: report of a WHO informal consultation held at WHO headquarters, Geneva, Switzerland, 14-16 June 2010.

WHO Writing Group, Ampofo WK, Baylor N, Cobey S, Cox NJ, Daves S, Edwards S, Ferguson N, Grohmann G, Hay A, Katz J, Kullabutr K, Lambert L, Levandowski R, Mishra AC, Monto A, Siqueira M, Tashiro M, Waddell AL, Wairagkar N, Wood J, Zambon M, Zhang W.

Influenza Other Respir Viruses. 2012 Mar;6(2):142-52, e1-5. doi: 10.1111/j.1750-2659.2011.00277.x. Epub 2011 Aug 8.

33.

Strength and tempo of selection revealed in viral gene genealogies.

Bedford T, Cobey S, Pascual M.

BMC Evol Biol. 2011 Jul 25;11:220. doi: 10.1186/1471-2148-11-220.

34.

Predicting the epidemic sizes of influenza A/H1N1, A/H3N2, and B: a statistical method.

Goldstein E, Cobey S, Takahashi S, Miller JC, Lipsitch M.

PLoS Med. 2011 Jul;8(7):e1001051. doi: 10.1371/journal.pmed.1001051. Epub 2011 Jul 5.

35.

Consequences of host heterogeneity, epitope immunodominance, and immune breadth for strain competition.

Cobey S, Pascual M.

J Theor Biol. 2011 Feb 7;270(1):80-7. doi: 10.1016/j.jtbi.2010.11.009. Epub 2010 Nov 18.

36.

Global migration dynamics underlie evolution and persistence of human influenza A (H3N2).

Bedford T, Cobey S, Beerli P, Pascual M.

PLoS Pathog. 2010 May 27;6(5):e1000918. doi: 10.1371/journal.ppat.1000918.

37.

Ecological factors driving the long-term evolution of influenza's host range.

Cobey S, Pascual M, Dieckmann U.

Proc Biol Sci. 2010 Sep 22;277(1695):2803-10. doi: 10.1098/rspb.2010.0519. Epub 2010 May 5.

38.

Capturing escape in infectious disease dynamics.

Cobey S, Koelle K.

Trends Ecol Evol. 2008 Oct;23(10):572-7. doi: 10.1016/j.tree.2008.06.008. Epub 2008 Aug 19. Review.

PMID:
18715671
39.

Epochal evolution shapes the phylodynamics of interpandemic influenza A (H3N2) in humans.

Koelle K, Cobey S, Grenfell B, Pascual M.

Science. 2006 Dec 22;314(5807):1898-903.

40.

Quantitative trait loci associated with reversal learning and latent inhibition in honeybees (Apis mellifera).

Chandra SB, Hunt GJ, Cobey S, Smith BH.

Behav Genet. 2001 May;31(3):275-85.

PMID:
11699600
41.

Sperm-mediated transformation of the honey bee, Apis mellifera.

Robinson KO, Ferguson HJ, Cobey S, Vaessin H, Smith BH.

Insect Mol Biol. 2000 Dec;9(6):625-34.

PMID:
11122471
42.

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