-
1
-
-
84956621342
-
Quantifying influenza virus diversity and transmission in humans
-
Poon L.L., Song T., Rosenfeld R., Lin X., Rogers M.B., Zhou B., Sebra R., Halpin R.A., Guan Y., Twaddle A., DePasse J.V., Stockwell T.B., Wentworth D.E., Holmes E.C., Greenbaum B., Peiris J.S., Cowling B.J., Ghedin E. Quantifying influenza virus diversity and transmission in humans. Nat. Genet. 2016, 48(2):195-200. 10.1038/ng.3479.
-
(2016)
Nat. Genet.
, vol.48
, Issue.2
, pp. 195-200
-
-
Poon, L.L.1
Song, T.2
Rosenfeld, R.3
Lin, X.4
Rogers, M.B.5
Zhou, B.6
Sebra, R.7
Halpin, R.A.8
Guan, Y.9
Twaddle, A.10
DePasse, J.V.11
Stockwell, T.B.12
Wentworth, D.E.13
Holmes, E.C.14
Greenbaum, B.15
Peiris, J.S.16
Cowling, B.J.17
Ghedin, E.18
-
2
-
-
70349272201
-
Single-reaction genomic amplification accelerates sequencing and vaccine production for classical and Swine origin human influenza a viruses
-
Zhou B., Donnelly M.E., Scholes D.T., St George K., Hatta M., Kawaoka Y., Wentworth D.E. Single-reaction genomic amplification accelerates sequencing and vaccine production for classical and Swine origin human influenza a viruses. J. Virol. 2009, 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
Kawaoka, Y.6
Wentworth, D.E.7
-
3
-
-
0030774933
-
A practical approach to genetic screening for influenza virus variants
-
Zou S. A practical approach to genetic screening for influenza virus variants. J. Clin. Microbiol. 1997, 35:2623-2627.
-
(1997)
J. Clin. Microbiol.
, vol.35
, pp. 2623-2627
-
-
Zou, S.1
-
4
-
-
66149137896
-
Influenza antiviral resistance testing in New York and Wisconsin, 2006-2008: methodology and surveillance data
-
Laplante J.M., Marshall S.A., Shudt M., Van T.T., Reisdorf E.S., Mingle L.A., Shult P.A., George K.St. Influenza antiviral resistance testing in New York and Wisconsin, 2006-2008: methodology and surveillance data. J. Clin. Microbiol. 2009, 47:1372-1378.
-
(2009)
J. Clin. Microbiol.
, vol.47
, pp. 1372-1378
-
-
Laplante, J.M.1
Marshall, S.A.2
Shudt, M.3
Van, T.T.4
Reisdorf, E.S.5
Mingle, L.A.6
Shult, P.A.7
George, K.S.8
-
5
-
-
84962892463
-
BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT
-
Hall T.A. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl. Acids Symp. Ser. 1999, 41:95-98.
-
(1999)
Nucl. Acids Symp. Ser.
, vol.41
, pp. 95-98
-
-
Hall, T.A.1
-
6
-
-
79957613599
-
MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
-
Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 2011, 28:2731-2739.
-
(2011)
Mol. Biol. Evol.
, vol.28
, pp. 2731-2739
-
-
Tamura, K.1
Peterson, D.2
Peterson, N.3
Stecher, G.4
Nei, M.5
Kumar, S.6
-
7
-
-
28944438378
-
ConFind: a robust tool for conserved sequence identification
-
Smagala J.A., Dawson E.D., Mehlmann M., Townsend M.B., Kuchta R.D., Rowlen K.L. ConFind: a robust tool for conserved sequence identification. Bioinformatics 2005, 21:4420-4422.
-
(2005)
Bioinformatics
, vol.21
, pp. 4420-4422
-
-
Smagala, J.A.1
Dawson, E.D.2
Mehlmann, M.3
Townsend, M.B.4
Kuchta, R.D.5
Rowlen, K.L.6
-
8
-
-
84925268714
-
Detection of a transient R292K mutation in influenza A/H3N2 viruses shed for several weeks by an immunocompromised patient
-
Babady N.E., Laplante J.M., Tang Y.W., St George K. Detection of a transient R292K mutation in influenza A/H3N2 viruses shed for several weeks by an immunocompromised patient. J. Clin. Microbiol. 2015, 53:1415-1418.
-
(2015)
J. Clin. Microbiol.
, vol.53
, pp. 1415-1418
-
-
Babady, N.E.1
Laplante, J.M.2
Tang, Y.W.3
St George, K.4
-
9
-
-
84937514654
-
Identification of hemagglutinin residues responsible for H3N2 antigenic drift during the 2014-2015 influenza season
-
Chambers B.S., Parkhouse K., Ross T.M., Alby K., Hensley S.E. Identification of hemagglutinin residues responsible for H3N2 antigenic drift during the 2014-2015 influenza season. Cell Rep. 2015, 12:1-6.
-
(2015)
Cell Rep.
, vol.12
, pp. 1-6
-
-
Chambers, B.S.1
Parkhouse, K.2
Ross, T.M.3
Alby, K.4
Hensley, S.E.5
-
10
-
-
84883897500
-
ACMG clinical laboratory standards for next-generation sequencing
-
Rehm H.L., Bale S.J., Bayrak-Toydemir P., Berg J.S., Brown K.K., Deignan J.L., Friez M.J., Funke B.H., Hegde M.R., Lyon E., Working Group of the American College of Medical G., Genomics Laboratory Quality Assurance C. ACMG clinical laboratory standards for next-generation sequencing. Genet. Med. 2013, 15:733-747.
-
(2013)
Genet. Med.
, vol.15
, pp. 733-747
-
-
Rehm, H.L.1
Bale, S.J.2
Bayrak-Toydemir, P.3
Berg, J.S.4
Brown, K.K.5
Deignan, J.L.6
Friez, M.J.7
Funke, B.H.8
Hegde, M.R.9
Lyon, E.10
-
11
-
-
0031978181
-
Base-calling of automated sequencer traces using phred II. Error probabilities
-
Ewing B., Green P. Base-calling of automated sequencer traces using phred II. Error probabilities. Genome Res. 1998, 8:186-194.
-
(1998)
Genome Res.
, vol.8
, pp. 186-194
-
-
Ewing, B.1
Green, P.2
-
12
-
-
84934769334
-
Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform
-
Schirmer M., Ijaz U.Z., D'Amore R., Hall N., Sloan W.T., Quince C. Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform. Nucl. Acids Res. 2015, 43:e37.
-
(2015)
Nucl. Acids Res.
, vol.43
, pp. e37
-
-
Schirmer, M.1
Ijaz, U.Z.2
D'Amore, R.3
Hall, N.4
Sloan, W.T.5
Quince, C.6
-
13
-
-
84905098081
-
Deep sequencing: becoming a critical tool in clinical virology
-
Quinones-Mateu M.E., Avila S., Reyes-Teran G., Martinez M.A. Deep sequencing: becoming a critical tool in clinical virology. J. Clin. Virol. 2014, 61:9-19.
-
(2014)
J. Clin. Virol.
, vol.61
, pp. 9-19
-
-
Quinones-Mateu, M.E.1
Avila, S.2
Reyes-Teran, G.3
Martinez, M.A.4
-
14
-
-
84929082774
-
Distinguishing low frequency mutations from RT-PCR and sequence errors in viral deep sequencing data
-
Orton R.J., Wright C.F., Morelli M.J., King D.J., Paton D.J., King D.P., Haydon D.T. Distinguishing low frequency mutations from RT-PCR and sequence errors in viral deep sequencing data. BMC Genomics 2015, 16:229.
-
(2015)
BMC Genomics
, vol.16
, pp. 229
-
-
Orton, R.J.1
Wright, C.F.2
Morelli, M.J.3
King, D.J.4
Paton, D.J.5
King, D.P.6
Haydon, D.T.7
-
15
-
-
57149093399
-
Pyrosequencing as a tool to detect molecular markers of resistance to neuraminidase inhibitors in seasonal influenza A viruses
-
Deyde V.M., Okomo-Adhiambo M., Sheu T.G., Wallis T.R., Fry A., Dharan N., Klimov A.I., Gubareva L.V. Pyrosequencing as a tool to detect molecular markers of resistance to neuraminidase inhibitors in seasonal influenza A viruses. Antivir. Res. 2009, 81:16-24.
-
(2009)
Antivir. Res.
, vol.81
, pp. 16-24
-
-
Deyde, V.M.1
Okomo-Adhiambo, M.2
Sheu, T.G.3
Wallis, T.R.4
Fry, A.5
Dharan, N.6
Klimov, A.I.7
Gubareva, L.V.8
-
16
-
-
79952390994
-
Fast identification and removal of sequence contamination from genomic and metagenomic datasets
-
Schmieder R., Edwards R. Fast identification and removal of sequence contamination from genomic and metagenomic datasets. PLoS One 2011, 6:e17288.
-
(2011)
PLoS One
, vol.6
, pp. e17288
-
-
Schmieder, R.1
Edwards, R.2
-
17
-
-
84879818018
-
Next generation sequencing of viral RNA genomes
-
Marston D.A., McElhinney L.M., Ellis R.J., Horton D.L., Wise E.L., Leech S.L., David D., de Lamballerie X., Fooks A.R. Next generation sequencing of viral RNA genomes. BMC Genomics 2013, 14:444.
-
(2013)
BMC Genomics
, vol.14
, pp. 444
-
-
Marston, D.A.1
McElhinney, L.M.2
Ellis, R.J.3
Horton, D.L.4
Wise, E.L.5
Leech, S.L.6
David, D.7
de Lamballerie, X.8
Fooks, A.R.9
-
18
-
-
74849119655
-
Host cell selection of influenza neuraminidase variants: implications for drug resistance monitoring in A(H1N1) viruses
-
Okomo-Adhiambo M., Nguyen H.T., Sleeman K., Sheu T.G., Deyde V.M., Garten R.J., Xu X., Shaw M.W., Klimov A.I., Gubareva L.V. Host cell selection of influenza neuraminidase variants: implications for drug resistance monitoring in A(H1N1) viruses. Antivir. Res. 2010, 85:381-388.
-
(2010)
Antivir. Res.
, vol.85
, pp. 381-388
-
-
Okomo-Adhiambo, M.1
Nguyen, H.T.2
Sleeman, K.3
Sheu, T.G.4
Deyde, V.M.5
Garten, R.J.6
Xu, X.7
Shaw, M.W.8
Klimov, A.I.9
Gubareva, L.V.10
-
19
-
-
77951214216
-
Detection of E119V and E119I mutations in influenza A (H3N2) viruses isolated from an immunocompromised patient: challenges in diagnosis of oseltamivir resistance
-
Okomo-Adhiambo M., Demmler-Harrison G.J., Deyde V.M., Sheu T.G., Xu X., Klimov A.I., Gubareva L.V. Detection of E119V and E119I mutations in influenza A (H3N2) viruses isolated from an immunocompromised patient: challenges in diagnosis of oseltamivir resistance. Antimicrob. Agents Chemother. 2010, 54:1834-1841.
-
(2010)
Antimicrob. Agents Chemother.
, vol.54
, pp. 1834-1841
-
-
Okomo-Adhiambo, M.1
Demmler-Harrison, G.J.2
Deyde, V.M.3
Sheu, T.G.4
Xu, X.5
Klimov, A.I.6
Gubareva, L.V.7
-
20
-
-
84887464932
-
Cell culture-selected substitutions in influenza A(H3N2) neuraminidase affect drug susceptibility assessment
-
Tamura D., Nguyen H.T., Sleeman K., Levine M., Mishin V.P., Yang H., Guo Z., Okomo-Adhiambo M., Xu X., Stevens J., Gubareva L.V. Cell culture-selected substitutions in influenza A(H3N2) neuraminidase affect drug susceptibility assessment. Antimicrob. Agents Chemother. 2013, 57:6141-6146.
-
(2013)
Antimicrob. Agents Chemother.
, vol.57
, pp. 6141-6146
-
-
Tamura, D.1
Nguyen, H.T.2
Sleeman, K.3
Levine, M.4
Mishin, V.P.5
Yang, H.6
Guo, Z.7
Okomo-Adhiambo, M.8
Xu, X.9
Stevens, J.10
Gubareva, L.V.11
-
21
-
-
84888584335
-
The effect of the MDCK cell selected neuraminidase D151G mutation on the drug susceptibility assessment of influenza A(H3N2) viruses
-
Mishin V.P., Sleeman K., Levine M., Carney P.J., Stevens J., Gubareva L.V. The effect of the MDCK cell selected neuraminidase D151G mutation on the drug susceptibility assessment of influenza A(H3N2) viruses. Antivir. Res. 2014, 101:93-96.
-
(2014)
Antivir. Res.
, vol.101
, pp. 93-96
-
-
Mishin, V.P.1
Sleeman, K.2
Levine, M.3
Carney, P.J.4
Stevens, J.5
Gubareva, L.V.6
-
22
-
-
84983559700
-
Zanamivir-resistant influenza viruses with Q136K or Q136R neuraminidase residue mutations can arise during MDCK cell culture creating challenges for antiviral susceptibility monitoring
-
Little K., Leang S.K., Butler J., Baas C., Harrower B., Mosse J., Barr I.G., Hurt A.C. Zanamivir-resistant influenza viruses with Q136K or Q136R neuraminidase residue mutations can arise during MDCK cell culture creating challenges for antiviral susceptibility monitoring. Euro Surveill. 2015, 20.
-
(2015)
Euro Surveill.
, pp. 20
-
-
Little, K.1
Leang, S.K.2
Butler, J.3
Baas, C.4
Harrower, B.5
Mosse, J.6
Barr, I.G.7
Hurt, A.C.8
-
23
-
-
84939979344
-
Transmission of influenza A viruses
-
Neumann G., Kawaoka Y. Transmission of influenza A viruses. Virology 2015, (479-480):234-246.
-
(2015)
Virology
, Issue.479-480
, pp. 234-246
-
-
Neumann, G.1
Kawaoka, Y.2
|