-
1
-
-
84855927073
-
Evolutionary dynamics of local pandemic H1N1/2009 influenza virus lineages revealed by whole-genome analysis
-
Baillie GJ, Galiano M, Agapow PM, Myers R, Chiam R, et al. (2012) Evolutionary dynamics of local pandemic H1N1/2009 influenza virus lineages revealed by whole-genome analysis. J Virol 86: 11-18.
-
(2012)
J Virol
, vol.86
, pp. 11-18
-
-
Baillie, G.J.1
Galiano, M.2
Agapow, P.M.3
Myers, R.4
Chiam, R.5
-
2
-
-
46649094365
-
The evolutionary dynamics of human influenza B virus
-
Chen R, Holmes EC, (2008) The evolutionary dynamics of human influenza B virus. J Mol Evol 66: 655-663.
-
(2008)
J Mol Evol
, vol.66
, pp. 655-663
-
-
Chen, R.1
Holmes, E.C.2
-
3
-
-
84863122315
-
Emergence and dissemination of a swine H3N2 reassortant influenza virus with 2009 pandemic H1N1 genes in pigs in China
-
Fan X, Zhu H, Zhou B, Smith DK, Chen X, et al. (2012) Emergence and dissemination of a swine H3N2 reassortant influenza virus with 2009 pandemic H1N1 genes in pigs in China. J Virol 86: 2375-2378.
-
(2012)
J Virol
, vol.86
, pp. 2375-2378
-
-
Fan, X.1
Zhu, H.2
Zhou, B.3
Smith, D.K.4
Chen, X.5
-
4
-
-
27144474904
-
Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution
-
Ghedin E, Sengamalay NA, Shumway M, Zaborsky J, Feldblyum T, et al. (2005) Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution. Nature 437: 1162-1166.
-
(2005)
Nature
, vol.437
, pp. 1162-1166
-
-
Ghedin, E.1
Sengamalay, N.A.2
Shumway, M.3
Zaborsky, J.4
Feldblyum, T.5
-
5
-
-
84555178398
-
Synergistic adaptive mutations in the hemagglutinin and polymerase acidic protein lead to increased virulence of pandemic 2009 H1N1 influenza A virus in mice
-
Seyer R, Hrincius ER, Ritzel D, Abt M, Mellmann A, et al. (2012) Synergistic adaptive mutations in the hemagglutinin and polymerase acidic protein lead to increased virulence of pandemic 2009 H1N1 influenza A virus in mice. J Infect Dis 205: 262-271.
-
(2012)
J Infect Dis
, vol.205
, pp. 262-271
-
-
Seyer, R.1
Hrincius, E.R.2
Ritzel, D.3
Abt, M.4
Mellmann, A.5
-
6
-
-
34547756397
-
The genesis and spread of reassortment human influenza A/H3N2 viruses conferring adamantane resistance
-
Simonsen L, Viboud C, Grenfell BT, Dushoff J, Jennings L, et al. (2007) The genesis and spread of reassortment human influenza A/H3N2 viruses conferring adamantane resistance. Mol Biol Evol 24: 1811-1820.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1811-1820
-
-
Simonsen, L.1
Viboud, C.2
Grenfell, B.T.3
Dushoff, J.4
Jennings, L.5
-
7
-
-
58349121196
-
Adaptation of human influenza H3N2 virus in a mouse pneumonitis model: insights into viral virulence, tissue tropism and host pathogenesis
-
Narasaraju T, Sim MK, Ng HH, Phoon MC, Shanker N, et al. (2009) Adaptation of human influenza H3N2 virus in a mouse pneumonitis model: insights into viral virulence, tissue tropism and host pathogenesis. Microbes Infect 11: 2-11.
-
(2009)
Microbes Infect
, vol.11
, pp. 2-11
-
-
Narasaraju, T.1
Sim, M.K.2
Ng, H.H.3
Phoon, M.C.4
Shanker, N.5
-
8
-
-
83355176482
-
Segregation of virulent influenza A(H1N1) variants in the lower respiratory tract of critically ill patients during the 2010-2011 seasonal epidemic
-
Piralla A, Pariani E, Rovida F, Campanini G, Muzzi A, et al. (2011) Segregation of virulent influenza A(H1N1) variants in the lower respiratory tract of critically ill patients during the 2010-2011 seasonal epidemic. PLoS One 6: e28332.
-
(2011)
PLoS One
, vol.6
-
-
Piralla, A.1
Pariani, E.2
Rovida, F.3
Campanini, G.4
Muzzi, A.5
-
9
-
-
79953279914
-
Influenza genome diversity and evolution
-
Tsai KN, Chen GW, (2011) Influenza genome diversity and evolution. Microbes Infect 13: 479-488.
-
(2011)
Microbes Infect
, vol.13
, pp. 479-488
-
-
Tsai, K.N.1
Chen, G.W.2
-
10
-
-
1842588700
-
Influenza A virus PB1-F2 gene in recent Taiwanese isolates
-
Chen GW, Yang CC, Tsao KC, Huang CG, Lee LA, et al. (2004) Influenza A virus PB1-F2 gene in recent Taiwanese isolates. Emerg Infect Dis 10: 630-636.
-
(2004)
Emerg Infect Dis
, vol.10
, pp. 630-636
-
-
Chen, G.W.1
Yang, C.C.2
Tsao, K.C.3
Huang, C.G.4
Lee, L.A.5
-
11
-
-
24044455869
-
Genome sequencing in microfabricated high-density picolitre reactors
-
Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, et al. (2005) Genome sequencing in microfabricated high-density picolitre reactors. Nature 437: 376-380.
-
(2005)
Nature
, vol.437
, pp. 376-380
-
-
Margulies, M.1
Egholm, M.2
Altman, W.E.3
Attiya, S.4
Bader, J.S.5
-
13
-
-
77952734936
-
High-throughput DNA sequencing-concepts and limitations
-
Kircher M, Kelso J, (2010) High-throughput DNA sequencing-concepts and limitations. Bioessays 32: 524-536.
-
(2010)
Bioessays
, vol.32
, pp. 524-536
-
-
Kircher, M.1
Kelso, J.2
-
14
-
-
84860756398
-
Performance comparison of benchtop high-throughput sequencing platforms
-
Loman NJ, Misra RV, Dallman TJ, Constantinidou C, Gharbia SE, et al. (2012) Performance comparison of benchtop high-throughput sequencing platforms. Nat Biotechnol 30: 434-439.
-
(2012)
Nat Biotechnol
, vol.30
, pp. 434-439
-
-
Loman, N.J.1
Misra, R.V.2
Dallman, T.J.3
Constantinidou, C.4
Gharbia, S.E.5
-
15
-
-
84856770811
-
Direct comparisons of Illumina vs. Roche 454 sequencing technologies on the same microbial community DNA sample
-
Luo C, Tsementzi D, Kyrpides N, Read T, Konstantinidis KT, (2012) Direct comparisons of Illumina vs. Roche 454 sequencing technologies on the same microbial community DNA sample. PLoS One 7: e30087.
-
(2012)
PLoS One
, vol.7
-
-
Luo, C.1
Tsementzi, D.2
Kyrpides, N.3
Read, T.4
Konstantinidis, K.T.5
-
16
-
-
79956066785
-
Comparison of sequence reads obtained from three next-generation sequencing platforms
-
Suzuki S, Ono N, Furusawa C, Ying BW, Yomo T, (2011) Comparison of sequence reads obtained from three next-generation sequencing platforms. PLoS One 6: e19534.
-
(2011)
PLoS One
, vol.6
-
-
Suzuki, S.1
Ono, N.2
Furusawa, C.3
Ying, B.W.4
Yomo, T.5
-
17
-
-
84858739096
-
Analysis of high-depth sequence data for studying viral diversity: a comparison of next generation sequencing platforms using Segminator II
-
Archer J, Baillie G, Watson SJ, Kellam P, Rambaut A, et al. (2012) Analysis of high-depth sequence data for studying viral diversity: a comparison of next generation sequencing platforms using Segminator II. BMC bioinformatics 13: 47.
-
(2012)
BMC Bioinformatics
, vol.13
, pp. 47
-
-
Archer, J.1
Baillie, G.2
Watson, S.J.3
Kellam, P.4
Rambaut, A.5
-
18
-
-
82255181690
-
Applications of next-generation sequencing technologies to diagnostic virology
-
Barzon L, Lavezzo E, Militello V, Toppo S, Palu G, (2011) Applications of next-generation sequencing technologies to diagnostic virology. Int J Mol Sci 12: 7861-7884.
-
(2011)
Int J Mol Sci
, vol.12
, pp. 7861-7884
-
-
Barzon, L.1
Lavezzo, E.2
Militello, V.3
Toppo, S.4
Palu, G.5
-
19
-
-
45249089738
-
A simple way to treat PCR products prior to sequencing using ExoSAP-IT
-
Bell J, (2008) A simple way to treat PCR products prior to sequencing using ExoSAP-IT. BioTechniques 44: 834.
-
(2008)
BioTechniques
, vol.44
, pp. 834
-
-
Bell, J.1
-
20
-
-
0036315006
-
An improved method for post-PCR purification for mtDNA sequence analysis
-
Dugan KA, Lawrence HS, Hares DR, Fisher CL, Budowle B, (2002) An improved method for post-PCR purification for mtDNA sequence analysis. J Forensic Sci 47: 811-818.
-
(2002)
J Forensic Sci
, vol.47
, pp. 811-818
-
-
Dugan, K.A.1
Lawrence, H.S.2
Hares, D.R.3
Fisher, C.L.4
Budowle, B.5
-
21
-
-
33745915522
-
Amplification of the entire genome of influenza A virus H1N1 and H3N2 subtypes by reverse-transcription polymerase chain reaction
-
Chan CH, Lin KL, Chan Y, Wang YL, Chi YT, et al. (2006) Amplification of the entire genome of influenza A virus H1N1 and H3N2 subtypes by reverse-transcription polymerase chain reaction. J Virol Methods 136: 38-43.
-
(2006)
J Virol Methods
, vol.136
, pp. 38-43
-
-
Chan, C.H.1
Lin, K.L.2
Chan, Y.3
Wang, Y.L.4
Chi, Y.T.5
-
22
-
-
39849084772
-
Viral genome sequencing by random priming methods
-
Djikeng A, Halpin R, Kuzmickas R, Depasse J, Feldblyum J, et al. (2008) Viral genome sequencing by random priming methods. BMC Genomics 9: 5.
-
(2008)
BMC Genomics
, vol.9
, pp. 5
-
-
Djikeng, A.1
Halpin, R.2
Kuzmickas, R.3
Depasse, J.4
Feldblyum, J.5
-
23
-
-
80053563496
-
Surveillance and molecular characterization of human influenza B viruses during 2006-2010 revealed co-circulation of Yamagata-like and Victoria-like strains in eastern India
-
Roy T, Agrawal AS, Mukherjee A, Mishra AC, Chadha MS, et al. (2011) Surveillance and molecular characterization of human influenza B viruses during 2006-2010 revealed co-circulation of Yamagata-like and Victoria-like strains in eastern India. Infect Genet Evol 11: 1595-1601.
-
(2011)
Infect Genet Evol
, vol.11
, pp. 1595-1601
-
-
Roy, T.1
Agrawal, A.S.2
Mukherjee, A.3
Mishra, A.C.4
Chadha, M.S.5
-
24
-
-
84865569248
-
A universal influenza A and B duplex real-time RT-PCR assay
-
Lee HK, Loh TP, Lee CK, Tang JW, Chiu L, et al. (2012) A universal influenza A and B duplex real-time RT-PCR assay. J Med Virol 84: 1646-1651.
-
(2012)
J Med Virol
, vol.84
, pp. 1646-1651
-
-
Lee, H.K.1
Loh, T.P.2
Lee, C.K.3
Tang, J.W.4
Chiu, L.5
-
25
-
-
20144386723
-
Evaluation of PCR testing of ethanol-fixed nasal swab specimens as an augmented surveillance strategy for influenza virus and adenovirus identification
-
Krafft AE, Russell KL, Hawksworth AW, McCall S, Irvine M, et al. (2005) Evaluation of PCR testing of ethanol-fixed nasal swab specimens as an augmented surveillance strategy for influenza virus and adenovirus identification. J Clin Microbiol 43: 1768-1775.
-
(2005)
J Clin Microbiol
, vol.43
, pp. 1768-1775
-
-
Krafft, A.E.1
Russell, K.L.2
Hawksworth, A.W.3
McCall, S.4
Irvine, M.5
-
26
-
-
77956825656
-
Diagnostic testing for pandemic influenza in Singapore: a novel dual-gene quantitative real-time RT-PCR for the detection of influenza A/H1N1/2009
-
Lee HK, Lee CK, Loh TP, Tang JW, Chiu L, et al. (2010) Diagnostic testing for pandemic influenza in Singapore: a novel dual-gene quantitative real-time RT-PCR for the detection of influenza A/H1N1/2009. J Mol Diagn 12: 636-643.
-
(2010)
J Mol Diagn
, vol.12
, pp. 636-643
-
-
Lee, H.K.1
Lee, C.K.2
Loh, T.P.3
Tang, J.W.4
Chiu, L.5
-
27
-
-
70349272201
-
Single-reaction genomic amplification accelerates sequencing and vaccine production for classical and Swine origin human influenza a viruses
-
Zhou B, Donnelly ME, Scholes DT, St George K, Hatta M, et al. (2009) Single-reaction genomic amplification accelerates sequencing and vaccine production for classical and Swine origin human influenza a viruses. J Virol 83: 10309-10313.
-
(2009)
J Virol
, vol.83
, pp. 10309-10313
-
-
Zhou, B.1
Donnelly, M.E.2
Scholes, D.T.3
St George, K.4
Hatta, M.5
-
28
-
-
0031978181
-
Base-calling of automated sequencer traces using phred. II. Error probabilities
-
Ewing B, Green P, (1998) Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res 8: 186-194.
-
(1998)
Genome Res
, vol.8
, pp. 186-194
-
-
Ewing, B.1
Green, P.2
-
29
-
-
19344372045
-
The genome Assembly Archive: a new public resource
-
Salzberg SL, Church D, DiCuccio M, Yaschenko E, Ostell J, (2004) The genome Assembly Archive: a new public resource. PLoS Biol 2: E285.
-
(2004)
PLoS Biol
, vol.2
-
-
Salzberg, S.L.1
Church, D.2
DiCuccio, M.3
Yaschenko, E.4
Ostell, J.5
-
30
-
-
84857745267
-
Database resources of the National Center for Biotechnology Information
-
Sayers EW, Barrett T, Benson DA, Bolton E, Bryant SH, et al. (2012) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res 40: D13-25.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Sayers, E.W.1
Barrett, T.2
Benson, D.A.3
Bolton, E.4
Bryant, S.H.5
-
31
-
-
47849116142
-
A broad spectrum, one-step reverse-transcription PCR amplification of the neuraminidase gene from multiple subtypes of influenza A virus
-
Alvarez AC, Brunck ME, Boyd V, Lai R, Virtue E, et al. (2008) A broad spectrum, one-step reverse-transcription PCR amplification of the neuraminidase gene from multiple subtypes of influenza A virus. Virol J 5: 77.
-
(2008)
Virol J
, vol.5
, pp. 77
-
-
Alvarez, A.C.1
Brunck, M.E.2
Boyd, V.3
Lai, R.4
Virtue, E.5
-
32
-
-
0033620434
-
Improved cycle sequencing of GC-rich DNA template
-
Choi JS, Kim JS, Joe CO, Kim S, Ha KS, et al. (1999) Improved cycle sequencing of GC-rich DNA template. Exp Mol Med 31: 20-24.
-
(1999)
Exp Mol Med
, vol.31
, pp. 20-24
-
-
Choi, J.S.1
Kim, J.S.2
Joe, C.O.3
Kim, S.4
Ha, K.S.5
-
33
-
-
0034691053
-
Effects of passage history and sampling bias on phylogenetic reconstruction of human influenza A evolution
-
Bush RM, Smith CB, Cox NJ, Fitch WM, (2000) Effects of passage history and sampling bias on phylogenetic reconstruction of human influenza A evolution. Proc Natl Acad Sci U S A 97: 6974-6980.
-
(2000)
Proc Natl Acad Sci U S A
, vol.97
, pp. 6974-6980
-
-
Bush, R.M.1
Smith, C.B.2
Cox, N.J.3
Fitch, W.M.4
-
34
-
-
0022515730
-
Host cell-mediated selection of a mutant influenza A virus that has lost a complex oligosaccharide from the tip of the hemagglutinin
-
Deom CM, Caton AJ, Schulze IT, (1986) Host cell-mediated selection of a mutant influenza A virus that has lost a complex oligosaccharide from the tip of the hemagglutinin. Proc Natl Acad Sci U S A 83: 3771-3775.
-
(1986)
Proc Natl Acad Sci U S A
, vol.83
, pp. 3771-3775
-
-
Deom, C.M.1
Caton, A.J.2
Schulze, I.T.3
-
35
-
-
80455168614
-
Why do influenza virus subtypes die out?
-
MBio 2
-
Palese P, Wang TT (2011) Why do influenza virus subtypes die out? A hypothesis. MBio 2.
-
(2011)
A hypothesis
-
-
Palese, P.1
Wang, T.T.2
-
36
-
-
84863115945
-
Hemagglutinin stalk antibodies elicited by the 2009 pandemic influenza virus as a mechanism for the extinction of seasonal H1N1 viruses
-
Pica N, Hai R, Krammer F, Wang TT, Maamary J, et al. (2012) Hemagglutinin stalk antibodies elicited by the 2009 pandemic influenza virus as a mechanism for the extinction of seasonal H1N1 viruses. Proc Natl Acad Sci U S A 109: 2573-2578.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 2573-2578
-
-
Pica, N.1
Hai, R.2
Krammer, F.3
Wang, T.T.4
Maamary, J.5
-
37
-
-
34948838495
-
Recommended composition of influenza virus vaccines for use in the 2008 influenza season
-
WHO
-
WHO (2007) Recommended composition of influenza virus vaccines for use in the 2008 influenza season. Wkly Epidemiol Rec 82: 351-356.
-
(2007)
Wkly Epidemiol Rec
, vol.82
, pp. 351-356
-
-
-
38
-
-
70349902706
-
Recommended composition of influenza virus vaccines for use in the 2010 influenza season (southern hemisphere winter)
-
WHO
-
WHO (2009) Recommended composition of influenza virus vaccines for use in the 2010 influenza season (southern hemisphere winter). Wkly Epidemiol Rec 84: 421-431.
-
(2009)
Wkly Epidemiol Rec
, vol.84
, pp. 421-431
-
-
-
39
-
-
84859393257
-
Recommended composition of influenza virus vaccines for use in the 2012-2013 northern hemisphere influenza season
-
WHO
-
WHO (2012) Recommended composition of influenza virus vaccines for use in the 2012-2013 northern hemisphere influenza season. Wkly Epidemiol Rec 87: 83-95.
-
(2012)
Wkly Epidemiol Rec
, vol.87
, pp. 83-95
-
-
-
40
-
-
70350486533
-
The role of genomics in tracking the evolution of influenza A virus
-
McHardy AC, Adams B, (2009) The role of genomics in tracking the evolution of influenza A virus. PLoS Pathog 5: e1000566.
-
(2009)
PLoS Pathog
, vol.5
-
-
McHardy, A.C.1
Adams, B.2
|