-
1
-
-
41749124757
-
The pathology of influenza virus infections
-
Taubenberger JK, Morens DM. 2008. The pathology of influenza virus infections. Annu Rev Pathol 3:499-522. https://doi.org/10.1146/annurev.pathmechdis.3.121806.154316.
-
(2008)
Annu Rev Pathol
, vol.3
, pp. 499-522
-
-
Taubenberger, J.K.1
Morens, D.M.2
-
2
-
-
0026516405
-
Evolutionary processes in influenza viruses: Divergence, rapid evolution, and stasis
-
Springer, New York, NY
-
Gorman OT, Bean WJ, Webster RG. 1992. Evolutionary processes in influenza viruses: divergence, rapid evolution, and stasis, p 75-97. In Genetic diversity of RNA viruses. Springer, New York, NY.
-
(1992)
Genetic Diversity of RNA Viruses
, pp. 75-97
-
-
Gorman, O.T.1
Bean, W.J.2
Webster, R.G.3
-
3
-
-
79960384534
-
Influenza A viruses: New research developments
-
Medina RA, Garcia-Sastre A. 2011. Influenza A viruses: new research developments. Nat Rev Microbiol 9:590-603. https://doi.org/10.1038/nrmicro2613.
-
(2011)
Nat Rev Microbiol
, vol.9
, pp. 590-603
-
-
Medina, R.A.1
Garcia-Sastre, A.2
-
4
-
-
84877359457
-
Connecting the study of wild influenza with the potential for pandemic disease
-
Runstadler J, Hill N, Hussein IT, Puryear W, Keogh M. 2013. Connecting the study of wild influenza with the potential for pandemic disease. Infect Genet Evol 17:162-187. https://doi.org/10.1016/j.meegid.2013.02.020.
-
(2013)
Infect Genet Evol
, vol.17
, pp. 162-187
-
-
Runstadler, J.1
Hill, N.2
Hussein, I.T.3
Puryear, W.4
Keogh, M.5
-
5
-
-
77952481249
-
Influenza virus in a natural host, the mallard: Experimental infection data
-
Jourdain E, Gunnarsson G, Wahlgren J, Latorre-Margalef N, Brojer C, Sahlin S, Svensson L, Waldenstrom J, Lundkvist A, Olsen B. 2010. Influenza virus in a natural host, the mallard: experimental infection data. PLoS One 5:e8935. https://doi.org/10.1371/journal.pone.0008935.
-
(2010)
PLoS One
, vol.5
, pp. e8935
-
-
Jourdain, E.1
Gunnarsson, G.2
Wahlgren, J.3
Latorre-Margalef, N.4
Brojer, C.5
Sahlin, S.6
Svensson, L.7
Waldenstrom, J.8
Lundkvist, A.9
Olsen, B.10
-
6
-
-
0026576063
-
Evolution and ecology of influenza A viruses
-
Webster RG, Bean WJ, Gorman OT, Chambers TM, Kawaoka Y. 1992. Evolution and ecology of influenza A viruses. Microbiol Rev 56:152-179.
-
(1992)
Microbiol Rev
, vol.56
, pp. 152-179
-
-
Webster, R.G.1
Bean, W.J.2
Gorman, O.T.3
Chambers, T.M.4
Kawaoka, Y.5
-
7
-
-
0007485659
-
Mycoparasitism and plant disease control
-
Manchester University Press, Manchester, United Kingdom
-
Whipps J, Lewis K, Cooke R. 1988, Mycoparasitism and plant disease control, p 161-187. In Fungi in biological control systems. Manchester University Press, Manchester, United Kingdom.
-
(1988)
Fungi in Biological Control Systems
, pp. 161-187
-
-
Whipps, J.1
Lewis, K.2
Cooke, R.3
-
8
-
-
84872034370
-
Human microbiome analysis
-
Morgan XC, Huttenhower C. 2012. Human microbiome analysis. PLoS Comput Biol 8:e1002808. https://doi.org/10.1371/journal.pcbi.1002808.
-
(2012)
PLoS Comput Biol
, vol.8
, pp. e1002808
-
-
Morgan, X.C.1
Huttenhower, C.2
-
9
-
-
84895733084
-
A compositional look at the human gastrointestinal microbiome and immune activation parameters in HIV infected subjects
-
Mutlu EA, Keshavarzian A, Losurdo J, Swanson G, Siewe B, Forsyth C, French A, DeMarais P, Sun Y, Koenig L, Cox S, Engen P, Chakradeo P, Abbasi R, Gorenz A, Burns C, Landay A. 2014. A compositional look at the human gastrointestinal microbiome and immune activation parameters in HIV infected subjects. PLoS Pathog 10:e1003829. https://doi.org/10.1371/journal.ppat.1003829.
-
(2014)
PLoS Pathog
, vol.10
, pp. e1003829
-
-
Mutlu, E.A.1
Keshavarzian, A.2
Losurdo, J.3
Swanson, G.4
Siewe, B.5
Forsyth, C.6
French, A.7
DeMarais, P.8
Sun, Y.9
Koenig, L.10
Cox, S.11
Engen, P.12
Chakradeo, P.13
Abbasi, R.14
Gorenz, A.15
Burns, C.16
Landay, A.17
-
10
-
-
84949660543
-
With a little help from my enteric microbial friends
-
Berkhout B. 2015. With a little help from my enteric microbial friends. Front Med 2:30. https://doi.org/10.3389/fmed.2015.00030.
-
(2015)
Front Med
, vol.2
, pp. 30
-
-
Berkhout, B.1
-
11
-
-
84864311450
-
Commensal bacteria calibrate the activation threshold of innate antiviral immunity
-
Abt MC, Osborne LC, Monticelli LA, Doering TA, Alenghat T, Sonnenberg GF, Paley MA, Antenus M, Williams KL, Erikson J, Wherry EJ, Artis D. 2012. Commensal bacteria calibrate the activation threshold of innate antiviral immunity. Immunity 37:158-170. https://doi.org/10.1016/j.immuni.2012.04.011.
-
(2012)
Immunity
, vol.37
, pp. 158-170
-
-
Abt, M.C.1
Osborne, L.C.2
Monticelli, L.A.3
Doering, T.A.4
Alenghat, T.5
Sonnenberg, G.F.6
Paley, M.A.7
Antenus, M.8
Williams, K.L.9
Erikson, J.10
Wherry, E.J.11
Artis, D.12
-
12
-
-
84892562813
-
House dust exposure mediates gut microbiome lactobacillus enrichment and airway immune defense against allergens and virus infection
-
Fujimura KE, Demoor T, Rauch M, Faruqi AA, Jang S, Johnson CC, Boushey HA, Zoratti E, Ownby D, Lukacs NW, Lynch SV. 2014. House dust exposure mediates gut microbiome lactobacillus enrichment and airway immune defense against allergens and virus infection. Proc Natl Acad Sci U S A 111:805-810. https://doi.org/10.1073/pnas.1310750111.
-
(2014)
Proc Natl Acad Sci U S A
, vol.111
, pp. 805-810
-
-
Fujimura, K.E.1
Demoor, T.2
Rauch, M.3
Faruqi, A.A.4
Jang, S.5
Johnson, C.C.6
Boushey, H.A.7
Zoratti, E.8
Ownby, D.9
Lukacs, N.W.10
Lynch, S.V.11
-
13
-
-
70350509805
-
Intestinal mucosal barrier function in health and disease
-
Turner JR. 2009. Intestinal mucosal barrier function in health and disease. Nat Rev Immunol 9:799-809. https://doi.org/10.1038/nri2653.
-
(2009)
Nat Rev Immunol
, vol.9
, pp. 799-809
-
-
Turner, J.R.1
-
14
-
-
84880321939
-
Defense and adaptation: The complex inter-relationship between Campylobacter jejuni and mucus
-
Alemka A, Corcionivoschi N, Bourke B. 2012. Defense and adaptation: the complex inter-relationship between Campylobacter jejuni and mucus. Front Cell Infect Microbiol 2:15. https://doi.org/10.3389/fcimb.2012.00015.
-
(2012)
Front Cell Infect Microbiol
, vol.2
, pp. 15
-
-
Alemka, A.1
Corcionivoschi, N.2
Bourke, B.3
-
15
-
-
42149121470
-
Mucins in the mucosal barrier to infection
-
Linden SK, Sutton P, Karlsson NG, Korolik V, McGuckin MA. 2008. Mucins in the mucosal barrier to infection. Mucosal Immunol 1:183-197. https://doi.org/10.1038/mi.2008.5.
-
(2008)
Mucosal Immunol
, vol.1
, pp. 183-197
-
-
Linden, S.K.1
Sutton, P.2
Karlsson, N.G.3
Korolik, V.4
McGuckin, M.A.5
-
16
-
-
84909978282
-
Enteric bacteria promote human and mouse norovirus infection of B cells
-
Jones MK, Watanabe M, Zhu S, Graves CL, Keyes LR, Grau KR, Gonzalez-Hernandez MB, Iovine NM, Wobus CE, Vinje J, Tibbetts SA, Wallet SM, Karst SM. 2014. Enteric bacteria promote human and mouse norovirus infection of B cells. Science 346:755-759. https://doi.org/10.1126/science.1257147.
-
(2014)
Science
, vol.346
, pp. 755-759
-
-
Jones, M.K.1
Watanabe, M.2
Zhu, S.3
Graves, C.L.4
Keyes, L.R.5
Grau, K.R.6
Gonzalez-Hernandez, M.B.7
Iovine, N.M.8
Wobus, C.E.9
Vinje, J.10
Tibbetts, S.A.11
Wallet, S.M.12
Karst, S.M.13
-
17
-
-
60049083254
-
Effects of influenza A virus infection on migrating mallard ducks
-
Latorre-Margalef N, Gunnarsson G, Munster VJ, Fouchier RA, Osterhaus AD, Elmberg J, Olsen B, Wallensten A, Haemig PD, Fransson T, Brudin L, Waldenstrom J. 2009. Effects of influenza A virus infection on migrating mallard ducks. Proc R Soc Lond B Biol Sci 276:1029-1036. https://doi.org/10.1098/rspb.2008.1501.
-
(2009)
Proc R Soc Lond B Biol Sci
, vol.276
, pp. 1029-1036
-
-
Latorre-Margalef, N.1
Gunnarsson, G.2
Munster, V.J.3
Fouchier, R.A.4
Osterhaus, A.D.5
Elmberg, J.6
Olsen, B.7
Wallensten, A.8
Haemig, P.D.9
Fransson, T.10
Brudin, L.11
Waldenstrom, J.12
-
18
-
-
84855949949
-
Using network analysis to explore co-occurrence patterns in soil microbial communities
-
Barberan A, Bates ST, Casamayor EO, Fierer N. 2012. Using network analysis to explore co-occurrence patterns in soil microbial communities. ISME J 6:343-351. https://doi.org/10.1038/ismej.2011.119.
-
(2012)
ISME J
, vol.6
, pp. 343-351
-
-
Barberan, A.1
Bates, S.T.2
Casamayor, E.O.3
Fierer, N.4
-
19
-
-
0033798864
-
Recognition of N-glycolylneuraminic acid linked to galactose by the 2,3 linkage is associated with intestinal replication of influenza A virus in ducks
-
Ito T, Suzuki Y, Suzuki T, Takada A, Horimoto T, Wells K, Kida H, Otsuki K, Kiso M, Ishida H, Kawaoka Y. 2000. Recognition of N-glycolylneuraminic acid linked to galactose by the 2,3 linkage is associated with intestinal replication of influenza A virus in ducks. J Virol 74:9300-9305. https://doi.org/10.1128/JVI.74.19.9300-9305.2000.
-
(2000)
J Virol
, vol.74
, pp. 9300-9305
-
-
Ito, T.1
Suzuki, Y.2
Suzuki, T.3
Takada, A.4
Horimoto, T.5
Wells, K.6
Kida, H.7
Otsuki, K.8
Kiso, M.9
Ishida, H.10
Kawaoka, Y.11
-
20
-
-
79955121049
-
Microbiota regulates immune defense against respiratory tract influenza A virus infection
-
Ichinohe T, Pang IK, Kumamoto Y, Peaper DR, Ho JH, Murray TS, Iwasaki A. 2011. Microbiota regulates immune defense against respiratory tract influenza A virus infection. Proc Natl Acad Sci USA 108:5354-5359. https://doi.org/10.1073/pnas.1019378108.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 5354-5359
-
-
Ichinohe, T.1
Pang, I.K.2
Kumamoto, Y.3
Peaper, D.R.4
Ho, J.H.5
Murray, T.S.6
Iwasaki, A.7
-
21
-
-
84866479770
-
Bacterial neuraminidase rescues influenza virus replication from inhibition by a neuraminidase inhibitor
-
Nishikawa T, Shimizu K, Tanaka T, Kuroda K, Takayama T, Yamamoto T, Hanada N, Hamada Y. 2012. Bacterial neuraminidase rescues influenza virus replication from inhibition by a neuraminidase inhibitor. PLoS One 7:e45371. https://doi.org/10.1371/journal.pone.0045371.
-
(2012)
PLoS One
, vol.7
, pp. e45371
-
-
Nishikawa, T.1
Shimizu, K.2
Tanaka, T.3
Kuroda, K.4
Takayama, T.5
Yamamoto, T.6
Hanada, N.7
Hamada, Y.8
-
22
-
-
84879740467
-
Characterization of the upper respiratory tract microbiomes of patients with pandemic H1N1 influenza
-
Chaban B, Albert A, Links MG, Gardy J, Tang P, Hill JE. 2013. Characterization of the upper respiratory tract microbiomes of patients with pandemic H1N1 influenza. PLoS One 8:e69559. https://doi.org/10.1371/journal.pone.0069559.
-
(2013)
PLoS One
, vol.8
, pp. e69559
-
-
Chaban, B.1
Albert, A.2
Links, M.G.3
Gardy, J.4
Tang, P.5
Hill, J.E.6
-
23
-
-
84884713908
-
Modulation of potential respiratory pathogens by pH1N1 viral infection
-
Leung RK, Zhou JW, Guan W, Li SK, Yang ZF, Tsui SK. 2013. Modulation of potential respiratory pathogens by pH1N1 viral infection. Clin Microbiol Infect 19:930-935. https://doi.org/10.1111/1469-0691.12054.
-
(2013)
Clin Microbiol Infect
, vol.19
, pp. 930-935
-
-
Leung, R.K.1
Zhou, J.W.2
Guan, W.3
Li, S.K.4
Yang, Z.F.5
Tsui, S.K.6
-
24
-
-
85041650164
-
Intranasal vaccination with live attenuated influenza vaccine increases diversity of the human nasal microbiome (VAC8P.1001)
-
Lambert N, Salk H, Kennedy R, Chia N, Grill D, Jacobson R, Poland G. 2014. Intranasal vaccination with live attenuated influenza vaccine increases diversity of the human nasal microbiome (VAC8P. 1001). J Immunol 192:142.7.
-
(2014)
J Immunol
, vol.192
, pp. 142
-
-
Lambert, N.1
Salk, H.2
Kennedy, R.3
Chia, N.4
Grill, D.5
Jacobson, R.6
Poland, G.7
-
25
-
-
85041694525
-
The bacterial microbiome of gut, lung, and blood after H1N1 influenza virus infection in mice with and without house dust mite exposure
-
American Thoracic Society, New York, NY
-
Oh Y, Yang S-WJ, Ngan DA, Hirota JA, Niikura M, Tam S, Knight DA, Hackett T-L, Dorscheid D, Man S. 2015. The bacterial microbiome of gut, lung, and blood after H1N1 influenza virus infection in mice with and without house dust mite exposure, p A1315-A1315. In A32 Microbial Interactions And Host Defense. American Thoracic Society, New York, NY.
-
(2015)
A32 Microbial Interactions and Host Defense
, pp. A1315-A1315
-
-
Oh, Y.1
Yang, S.-W.J.2
Ngan, D.A.3
Hirota, J.A.4
Niikura, M.5
Tam, S.6
Knight, D.A.7
Hackett, T.-L.8
Dorscheid, D.9
Man, S.10
-
26
-
-
56349094785
-
Fast unfolding of communities in large networks
-
Blondel VD, Guillaume J-L, Lambiotte R, Lefebvre E. 2008. Fast unfolding of communities in large networks. J Stat Mech 2008:P10008. https://doi.org/10.1088/1742-5468/2008/10/P10008.
-
(2008)
J Stat Mech
, vol.2008
, pp. P10008
-
-
Blondel, V.D.1
Guillaume, J.-L.2
Lambiotte, R.3
Lefebvre, E.4
-
27
-
-
85081787936
-
Chinese whispers: An efficient graph clustering algorithm and its application to natural language processing problems
-
Association for Computational Linguistics, Stroudsburg, PA
-
Biemann C. 2006. Chinese whispers: an efficient graph clustering algorithm and its application to natural language processing problems, p 73-80. In Proceedings of the First Workshop on Graph Based Methods for Natural Language Processing. Association for Computational Linguistics, Stroudsburg, PA.
-
(2006)
Proceedings of the First Workshop On Graph Based Methods for Natural Language Processing
, pp. 73-80
-
-
Biemann, C.1
-
29
-
-
80555140075
-
Scikit-learn: Machine learning in Python
-
Pedregosa F, Varoquaux G, Gramfort A, Michel V, Thirion B, Grisel O, Blondel M, Prettenhofer P, Weiss R, Dubourg V. 2011. Scikit-learn: machine learning in Python. J Mach Learn Res 12:2825-2830.
-
(2011)
J Mach Learn Res
, vol.12
, pp. 2825-2830
-
-
Pedregosa, F.1
Varoquaux, G.2
Gramfort, A.3
Michel, V.4
Thirion, B.5
Grisel, O.6
Blondel, M.7
Prettenhofer, P.8
Weiss, R.9
Dubourg, V.10
-
30
-
-
78651385687
-
Virological and serological surveillance for type A influenza in the black-legged kittiwake (Rissa tridactyla)
-
Toennessen R, Germundsson A, Jonassen CM, Haugen I, Berg K, Barrett RT, Rimstad E. 2011. Virological and serological surveillance for type A influenza in the black-legged kittiwake (Rissa tridactyla). Virol J 8:21. https://doi.org/10.1186/1743-422X-8-21.
-
(2011)
Virol J
, vol.8
, pp. 21
-
-
Toennessen, R.1
Germundsson, A.2
Jonassen, C.M.3
Haugen, I.4
Berg, K.5
Barrett, R.T.6
Rimstad, E.7
-
31
-
-
84875301338
-
Age-related differences in the cloacal microbiota of a wild bird species
-
van Dongen WF, White J, Brandl HB, Moodley Y, Merkling T, Leclaire S, Blanchard P, Danchin E, Hatch SA, Wagner RH. 2013. Age-related differences in the cloacal microbiota of a wild bird species. BMC Ecol 13:11. https://doi.org/10.1186/1472-6785-13-11.
-
(2013)
BMC Ecol
, vol.13
, pp. 11
-
-
Van Dongen, W.F.1
White, J.2
Brandl, H.B.3
Moodley, Y.4
Merkling, T.5
Leclaire, S.6
Blanchard, P.7
Danchin, E.8
Hatch, S.A.9
Wagner, R.H.10
-
32
-
-
84945306058
-
Cloacal microbiome structure in a long-distance migratory bird assessed using deep 16sRNA pyrosequencing
-
Kreisinger J, Čižkova D, Kropačkova L, Albrecht T. 2015. Cloacal microbiome structure in a long-distance migratory bird assessed using deep 16sRNA pyrosequencing. PLoS One 10:e0137401. https://doi.org/10.1371/journal.pone.0137401.
-
(2015)
PLoS One
, vol.10
, pp. e0137401
-
-
Kreisinger, J.1
Čižkova, D.2
Kropačkova, L.3
Albrecht, T.4
-
33
-
-
84892405808
-
Is low pathogenic avian influenza virus virulent for wild waterbirds?
-
Kuiken T. 2013. Is low pathogenic avian influenza virus virulent for wild waterbirds? Proc R Soc Lond B Biol Sci 280:20130990. https://doi.org/10.1098/rspb.2013.0990.
-
(2013)
Proc R Soc Lond B Biol Sci
, vol.280
, pp. 20130990
-
-
Kuiken, T.1
-
34
-
-
34447324898
-
Stability and diversity of ecosystems
-
Ives AR, Carpenter SR. 2007. Stability and diversity of ecosystems. Science 317:58-62. https://doi.org/10.1126/science.1133258.
-
(2007)
Science
, vol.317
, pp. 58-62
-
-
Ives, A.R.1
Carpenter, S.R.2
-
35
-
-
0035026814
-
Biodiversity and invasibility in grassland microcosms
-
Dukes JS. 2001. Biodiversity and invasibility in grassland microcosms. Oecologia 126:563-568. https://doi.org/10.1007/s004420000549.
-
(2001)
Oecologia
, vol.126
, pp. 563-568
-
-
Dukes, J.S.1
-
36
-
-
0038477000
-
Biodiversity, invasion resistance, and marine ecosystem function: Reconciling pattern and process
-
Stachowicz JJ, Fried H, Osman RW, Whitlatch RB. 2002. Biodiversity, invasion resistance, and marine ecosystem function: reconciling pattern and process. Ecology 83:2575-2590. https://doi.org/10.1890/0012-9658(2002)083[2575:BIRAME]2.0.CO;2.
-
(2002)
Ecology
, vol.83
, pp. 2575-2590
-
-
Stachowicz, J.J.1
Fried, H.2
Osman, R.W.3
Whitlatch, R.B.4
-
37
-
-
77951800382
-
Benefits of host genetic diversity for resistance to infection depend on parasite diversity
-
Ganz HH, Ebert D. 2010. Benefits of host genetic diversity for resistance to infection depend on parasite diversity. Ecology 91:1263-1268. https://doi.org/10.1890/09-1243.1.
-
(2010)
Ecology
, vol.91
, pp. 1263-1268
-
-
Ganz, H.H.1
Ebert, D.2
-
38
-
-
84874458142
-
From animalcules to an ecosystem: Application of ecological concepts to the human microbiome
-
Fierer N, Ferrenberg S, Flores GE, Gonzalez A, Kueneman J, Legg T, Lynch RC, McDonald D, Mihaljevic JR, O'Neill SP, Rhodes ME, Song SJ, Walters WA. 2012. From animalcules to an ecosystem: application of ecological concepts to the human microbiome. Annu Rev Ecol Evol Syst 43: 137-155. https://doi.org/10.1146/annurev-ecolsys-110411-160307.
-
(2012)
Annu Rev Ecol Evol Syst
, vol.43
, pp. 137-155
-
-
Fierer, N.1
Ferrenberg, S.2
Flores, G.E.3
Gonzalez, A.4
Kueneman, J.5
Legg, T.6
Lynch, R.C.7
McDonald, D.8
Mihaljevic, J.R.9
O'Neill, S.P.10
Rhodes, M.E.11
Song, S.J.12
Walters, W.A.13
-
39
-
-
34247210823
-
Microbial ecology of the cystic fibrosis lung
-
Harrison F. 2007. Microbial ecology of the cystic fibrosis lung. Microbiology 153:917-923. https://doi.org/10.1099/mic.0.2006/004077-0.
-
(2007)
Microbiology
, vol.153
, pp. 917-923
-
-
Harrison, F.1
-
40
-
-
79952701966
-
The vaginal microbiome: New information about genital tract flora using molecular based techniques
-
Lamont RF, Sobel JD, Akins RA, Hassan SS, Chaiworapongsa T, Kusanovic JP, Romero R. 2011. The vaginal microbiome: new information about genital tract flora using molecular based techniques. BJOG Int J Obstet Gynaecol 118:533-549. https://doi.org/10.1111/j.1471-0528.2010.02840.x.
-
(2011)
BJOG Int J Obstet Gynaecol
, vol.118
, pp. 533-549
-
-
Lamont, R.F.1
Sobel, J.D.2
Akins, R.A.3
Hassan, S.S.4
Chaiworapongsa, T.5
Kusanovic, J.P.6
Romero, R.7
-
41
-
-
30944466824
-
Reduced diversity of faecal microbiota in Crohn's disease revealed by a metagenomic approach
-
Manichanh C, Rigottier-Gois L, Bonnaud E, Gloux K, Pelletier E, Frangeul L, Nalin R, Jarrin C, Chardon P, Marteau P, Roca J, Dore J. 2006. Reduced diversity of faecal microbiota in Crohn's disease revealed by a metagenomic approach. Gut 55:205-211. https://doi.org/10.1136/gut.2005.073817.
-
(2006)
Gut
, vol.55
, pp. 205-211
-
-
Manichanh, C.1
Rigottier-Gois, L.2
Bonnaud, E.3
Gloux, K.4
Pelletier, E.5
Frangeul, L.6
Nalin, R.7
Jarrin, C.8
Chardon, P.9
Marteau, P.10
Roca, J.11
Dore, J.12
-
42
-
-
35348857386
-
Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases
-
Frank DN, St Amand AL, Feldman RA, Boedeker EC, Harpaz N, Pace NR. 2007. Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases. Proc Natl Acad Sci U S A 104:13780-13785. https://doi.org/10.1073/pnas.0706625104.
-
(2007)
Proc Natl Acad Sci U S A
, vol.104
, pp. 13780-13785
-
-
Frank, D.N.1
St Amand, A.L.2
Feldman, R.A.3
Boedeker, E.C.4
Harpaz, N.5
Pace, N.R.6
-
43
-
-
84928776626
-
Gut microbiota as potential orchestrators of irritable bowel syndrome
-
Bennet SM, Ohman L, Simren M. 2015. Gut microbiota as potential orchestrators of irritable bowel syndrome. Gut Liver 9:318-331. https://doi.org/10.5009/gnl14344.
-
(2015)
Gut Liver
, vol.9
, pp. 318-331
-
-
Bennet, S.M.1
Ohman, L.2
Simren, M.3
-
44
-
-
84949768080
-
Survival with a helping hand: Campylobacter and microbiota
-
Indikova I, Humphrey TJ, Hilbert F. 2015. Survival with a helping hand: campylobacter and microbiota. Front Microbiol 6:1266. https://doi.org/10.3389/fmicb.2015.01266.
-
(2015)
Front Microbiol
, vol.6
, pp. 1266
-
-
Indikova, I.1
Humphrey, T.J.2
Hilbert, F.3
-
45
-
-
84957836946
-
Biogeography of a human oral microbiome at the micron scale
-
Mark Welch JL, Rossetti BJ, Rieken CW, Dewhirst FE, Borisy GG. 2016. Biogeography of a human oral microbiome at the micron scale. Proc Natl Acad Sci U S A 113:E791-E800. https://doi.org/10.1073/pnas.1522149113.
-
(2016)
Proc Natl Acad Sci U S A
, vol.113
, pp. E791-E800
-
-
Mark Welch, J.L.1
Rossetti, B.J.2
Rieken, C.W.3
Dewhirst, F.E.4
Borisy, G.G.5
-
46
-
-
77952243141
-
QIIME allows analysis of high-throughput community sequencing data
-
Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Pena AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R. 2010. QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7:335-336. https://doi.org/10.1038/nmeth.f.303.
-
(2010)
Nat Methods
, vol.7
, pp. 335-336
-
-
Caporaso, J.G.1
Kuczynski, J.2
Stombaugh, J.3
Bittinger, K.4
Bushman, F.D.5
Costello, E.K.6
Fierer, N.7
Pena, A.G.8
Goodrich, J.K.9
Gordon, J.I.10
Huttley, G.A.11
Kelley, S.T.12
Knights, D.13
Koenig, J.E.14
Ley, R.E.15
Lozupone, C.A.16
McDonald, D.17
Muegge, B.D.18
Pirrung, M.19
Reeder, J.20
Sevinsky, J.R.21
Turnbaugh, P.J.22
Walters, W.A.23
Widmann, J.24
Yatsunenko, T.25
Zaneveld, J.26
Knight, R.27
more..
-
47
-
-
42349100152
-
Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes
-
Frank JA, Reich CI, Sharma S, Weisbaum JS, Wilson BA, Olsen GJ. 2008. Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes. Appl Environ Microbiol 74:2461-2470. https://doi.org/10.1128/AEM.02272-07.
-
(2008)
Appl Environ Microbiol
, vol.74
, pp. 2461-2470
-
-
Frank, J.A.1
Reich, C.I.2
Sharma, S.3
Weisbaum, J.S.4
Wilson, B.A.5
Olsen, G.J.6
-
48
-
-
84916894283
-
The microbes we eat: Abundance and taxonomy of microbes consumed in a day's worth of meals for three diet types
-
Lang JM, Eisen JA, Zivkovic AM. 2014. The microbes we eat: abundance and taxonomy of microbes consumed in a day's worth of meals for three diet types. PeerJ 2:e659. https://doi.org/10.7717/peerj.659.
-
(2014)
PeerJ
, vol.2
, pp. e659
-
-
Lang, J.M.1
Eisen, J.A.2
Zivkovic, A.M.3
-
49
-
-
80054913451
-
FLASH: Fast length adjustment of short reads to improve genome assemblies
-
Magoč T, Salzberg SL. 2011. FLASH: fast length adjustment of short reads to improve genome assemblies. Bioinformatics 27:2957-2963. https://doi.org/10.1093/bioinformatics/btr507.
-
(2011)
Bioinformatics
, vol.27
, pp. 2957-2963
-
-
Magoč, T.1
Salzberg, S.L.2
-
50
-
-
84872497741
-
Vegan: Community ecology package
-
Oksanen J, Blanchet FG, Kindt R, Legendre P, Minchin PR, O'Hara RB, Simpson GL, Solymos P, Stevens MHH, Wagner H. 2016. vegan: community ecology package. R package version 2.3-5. https://cran.r-project.org/package-vegan.
-
(2016)
R Package Version 2.3-5
-
-
Oksanen, J.1
Blanchet, F.G.2
Kindt, R.3
Legendre, P.4
Minchin, P.R.5
O'Hara, R.B.6
Simpson, G.L.7
Solymos, P.8
Stevens, M.H.H.9
Wagner, H.10
-
51
-
-
84907095419
-
R: A language and environment for statistical computing
-
Vienna, Austria
-
Team RC. 2016. R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. https://www.rproject. org/.
-
(2016)
R Foundation for Statistical Computing
-
-
-
52
-
-
77953882250
-
Picante: R tools for integrating phylogenies and ecology
-
Kembel SW, Cowan PD, Helmus MR, Cornwell WK, Morlon H, Ackerly DD, Blomberg SP, Webb CO. 2010. Picante: R tools for integrating phylogenies and ecology. Bioinformatics 26:1463-1464. https://doi.org/10.1093/bioinformatics/btq166.
-
(2010)
Bioinformatics
, vol.26
, pp. 1463-1464
-
-
Kembel, S.W.1
Cowan, P.D.2
Helmus, M.R.3
Cornwell, W.K.4
Morlon, H.5
Ackerly, D.D.6
Blomberg, S.P.7
Webb, C.O.8
-
54
-
-
84946829739
-
Cross-biome comparison of microbial association networks
-
Faust K, Lima-Mendez G, Lerat JS, Sathirapongsasuti JF, Knight R, Huttenhower C, Lenaerts T, Raes J. 2015. Cross-biome comparison of microbial association networks. Front Microbiol 6:1200. https://doi.org/10.3389/fmicb.2015.01200.
-
(2015)
Front Microbiol
, vol.6
, pp. 1200
-
-
Faust, K.1
Lima-Mendez, G.2
Lerat, J.S.3
Sathirapongsasuti, J.F.4
Knight, R.5
Huttenhower, C.6
Lenaerts, T.7
Raes, J.8
-
55
-
-
84864579031
-
Microbial co-occurrence relationships in the human microbiome
-
Faust K, Sathirapongsasuti JF, Izard J, Segata N, Gevers D, Raes J, Huttenhower C. 2012. Microbial co-occurrence relationships in the human microbiome. PLoS Comput Biol 8:e1002606. https://doi.org/10.1371/journal.pcbi.1002606.
-
(2012)
PLoS Comput Biol
, vol.8
, pp. e1002606
-
-
Faust, K.1
Sathirapongsasuti, J.F.2
Izard, J.3
Segata, N.4
Gevers, D.5
Raes, J.6
Huttenhower, C.7
-
56
-
-
85166916238
-
Gephi: An open source software for exploring and manipulating networks
-
The AAAI Press, Menlo Park, CA
-
Bastian M, Heymann S, Jacomy M. 2009. Gephi: an open source software for exploring and manipulating networks, p 361-362. In. Proceedings of the Third International Conference on Weblogs and Social Media. The AAAI Press, Menlo Park, CA.
-
(2009)
Proceedings of the Third International Conference On Weblogs and Social Media
, pp. 361-362
-
-
Bastian, M.1
Heymann, S.2
Jacomy, M.3
-
58
-
-
62549146687
-
Avian influenza viruses in wild birds: A moving target
-
Boyce WM, Sandrock C, Kreuder-Johnson C, Kelly T, Cardona C. 2009. Avian influenza viruses in wild birds: a moving target. Comp Immunol Microbiol Infect Dis 32:275-286. https://doi.org/10.1016/j.cimid.2008.01.002.
-
(2009)
Comp Immunol Microbiol Infect Dis
, vol.32
, pp. 275-286
-
-
Boyce, W.M.1
Sandrock, C.2
Kreuder-Johnson, C.3
Kelly, T.4
Cardona, C.5
-
59
-
-
68249107326
-
Surveillance for high pathoge-nicity avian influenza virus in wild birds in the Pacific flyway of the United States, 2006-2007
-
Dusek RJ, Bortner JB, DeLiberto TJ, Hoskins J, Franson JC, Bales BD, Yparraguirre D, Swafford SR, Ip HS. 2009. Surveillance for high pathoge-nicity avian influenza virus in wild birds in the Pacific flyway of the United States, 2006-2007. Avian Dis 53:222-230. https://doi.org/10.1637/8462-082908-Reg.1.
-
(2009)
Avian Dis
, vol.53
, pp. 222-230
-
-
Dusek, R.J.1
Bortner, J.B.2
DeLiberto, T.J.3
Hoskins, J.4
Franson, J.C.5
Bales, B.D.6
Yparraguirre, D.7
Swafford, S.R.8
Ip, H.S.9
-
60
-
-
84863719404
-
Genetic structure of Pacific flyway avian influenza viruses is shaped by geographic location, host species, and sampling period
-
Girard YA, Runstadler JA, Aldehoff F, Boyce W. 2012. Genetic structure of Pacific flyway avian influenza viruses is shaped by geographic location, host species, and sampling period. Virus Genes 44:415-428. https://doi.org/10.1007/s11262-011-0706-5.
-
(2012)
Virus Genes
, vol.44
, pp. 415-428
-
-
Girard, Y.A.1
Runstadler, J.A.2
Aldehoff, F.3
Boyce, W.4
-
61
-
-
84897148224
-
Sampling strategies and biodiversity of influenza A subtypes in wild birds
-
Olson SH, Parmley J, Soos C, Gilbert M, Latorre-Margalef N, Hall JS, Hansbro PM, Leighton F, Munster V, Joly D. 2014. Sampling strategies and biodiversity of influenza A subtypes in wild birds. PLoS One 9:e90826. https://doi.org/10.1371/journal.pone.0090826.
-
(2014)
PLoS One
, vol.9
, pp. e90826
-
-
Olson, S.H.1
Parmley, J.2
Soos, C.3
Gilbert, M.4
Latorre-Margalef, N.5
Hall, J.S.6
Hansbro, P.M.7
Leighton, F.8
Munster, V.9
Joly, D.10
-
62
-
-
84876577520
-
Individual variation in influenza A virus infection histories and long-term immune responses in mallards
-
Tolf C, Latorre-Margalef N, Wille M, Bengtsson D, Gunnarsson G, Grosbois V, Hasselquist D, Olsen B, Elmberg J, Waldenstrom J. 2013. Individual variation in influenza A virus infection histories and long-term immune responses in mallards. PLoS One 8:e61201. https://doi.org/10.1371/journal.pone.0061201.
-
(2013)
PLoS One
, vol.8
, pp. e61201
-
-
Tolf, C.1
Latorre-Margalef, N.2
Wille, M.3
Bengtsson, D.4
Gunnarsson, G.5
Grosbois, V.6
Hasselquist, D.7
Olsen, B.8
Elmberg, J.9
Waldenstrom, J.10
-
63
-
-
84881657850
-
Dual role of commensal bacteria in viral infections
-
Wilks J, Beilinson H, Golovkina TV. 2013. Dual role of commensal bacteria in viral infections. Immunol Rev 255:222-229. https://doi.org/10.1111/imr.12097.
-
(2013)
Immunol Rev
, vol.255
, pp. 222-229
-
-
Wilks, J.1
Beilinson, H.2
Golovkina, T.V.3
-
64
-
-
84905018877
-
Characterizing the avian gut microbiota: Membership, driving influences, and potential function
-
Waite DW, Taylor MW. 2014. Characterizing the avian gut microbiota: membership, driving influences, and potential function. Front Microbiol 5:223. https://doi.org/10.3389/fmicb.2014.00223.
-
(2014)
Front Microbiol
, vol.5
, pp. 223
-
-
Waite, D.W.1
Taylor, M.W.2
-
65
-
-
84881521344
-
Avian influenza: Mixed infections and missing viruses
-
Lindsay LL, Kelly TR, Plancarte M, Schobel S, Lin X, Dugan VG, Wentworth DE, Boyce WM. 2013. Avian influenza: mixed infections and missing viruses. Viruses 5:1964-1977. https://doi.org/10.3390/v5081964.
-
(2013)
Viruses
, vol.5
, pp. 1964-1977
-
-
Lindsay, L.L.1
Kelly, T.R.2
Plancarte, M.3
Schobel, S.4
Lin, X.5
Dugan, V.G.6
Wentworth, D.E.7
Boyce, W.M.8
|