-
1
-
-
0016355478
-
A new look at the statistical model identification
-
Akaike H (1974) A new look at the statistical model identification. IEEE Trans Aut Cont 19:716-723
-
(1974)
IEEE Trans Aut Cont
, vol.19
, pp. 716-723
-
-
Akaike, H.1
-
2
-
-
0034904994
-
Molecular genotyping of BK and JC viruses in human polyomavirus- associated interstitial nephritis after renal transplantation
-
Baksh FK, Finkelstein SD, Swalsky PA, Stoner GL, Ryschkewitsch CF, Randhawa P (2001) Molecular genotyping of BK and JC viruses in human polyomavirus-associated interstitial nephritis after renal transplantation. Am J Kidney Dis 38:354-365
-
(2001)
Am J Kidney Dis
, vol.38
, pp. 354-365
-
-
Baksh, F.K.1
Finkelstein, S.D.2
Swalsky, P.A.3
Stoner, G.L.4
Ryschkewitsch, C.F.5
Randhawa, P.6
-
3
-
-
26444433210
-
Complete nucleotide sequence of polyomavirus SA12
-
Cantalupo P, Doering A, Sullivan CS, Pal A, Peden KW, Lewis AM, Pipas JM (2005) Complete nucleotide sequence of polyomavirus SA12. J Virol 79:13094-13104
-
(2005)
J Virol
, vol.79
, pp. 13094-13104
-
-
Cantalupo, P.1
Doering, A.2
Sullivan, C.S.3
Pal, A.4
Peden, K.W.C.5
Lewis, A.M.6
Pipas, J.M.7
-
4
-
-
33644755935
-
Unique BK virus non-coding control region (NCCR) variants in hematopoietic stem cell transplant recipients with and without hemorrhagic cystitis
-
Carr MJ, McCormack GP, Mutton KJ, Crowley B (2006) Unique BK virus non-coding control region (NCCR) variants in hematopoietic stem cell transplant recipients with and without hemorrhagic cystitis. J Med Virol 78:485-493
-
(2006)
J Med Virol
, vol.78
, pp. 485-493
-
-
Carr, M.J.1
McCormack, G.P.2
Mutton, K.J.3
Crowley, B.4
-
5
-
-
33750274347
-
Subtype IV of the BK polyomavirus is prevalent in East Asia
-
Chen Q, Zheng HY, Zhong S, Ikegaya H, He HX, Wei W, He YY, Kobayashi N, Honjo T, Takasaka T, Takahashi S, Kitamura T, Yogo Y (2006) Subtype IV of the BK polyomavirus is prevalent in East Asia. Arch Virol 151:2419-2429
-
(2006)
Arch Virol
, vol.151
, pp. 2419-2429
-
-
Chen, Q.1
Zheng, H.Y.2
Zhong, S.3
Ikegaya, H.4
He, H.X.5
Wei, W.6
He, Y.Y.7
Kobayashi, N.8
Honjo, T.9
Takasaka, T.10
Takahashi, S.11
Kitamura, T.12
Yogo, Y.13
-
6
-
-
0020611190
-
Persistence of DNA sequences of BK virus and JC virus in normal human tissues and in diseased tissues
-
Chesters PM, Heritage J, McCance DJ (1983) Persistence of DNA sequences of BK virus and JC virus in normal human tissues and in diseased tissues. J Infect Dis 147:676-684
-
(1983)
J Infect Dis
, vol.147
, pp. 676-684
-
-
Chesters, P.M.1
Heritage, J.2
McCance, D.J.3
-
7
-
-
0001435503
-
Polyomaviridae: The viruses and their replication
-
4 Lippincott Williams & Wilkins Philadelphia
-
Cole CN, Conzen SD (2001) Polyomaviridae: the viruses and their replication. In: Knipe DM, Howley PM (eds) Fields virology, 4th ed. Lippincott Williams & Wilkins, Philadelphia, pp 2141-2173
-
(2001)
Fields Virology
, pp. 2141-2174
-
-
Cole, C.N.1
Conzen, S.D.2
Knipe, D.M.3
Howley, P.M.4
-
8
-
-
0030870701
-
Detection of BK polyomavirus genotypes in healthy and HIV-positive children
-
Di Taranto C, Pietropaolo V, Orsi GB, Jin L, Sinibaldi L, Degener AM (1997) Detection of BK polyomavirus genotypes in healthy and HIV-positive children. Eur J Epidemiol 13:653-657
-
(1997)
Eur J Epidemiol
, vol.13
, pp. 653-657
-
-
Di Taranto, C.1
Pietropaolo, V.2
Orsi, G.B.3
Jin, L.4
Sinibaldi, L.5
Degener, A.M.6
-
9
-
-
0028168856
-
A codon-based model of nucleotide substitution for protein-coding DNA sequences
-
Goldman N, Yang Z (1994) A codon-based model of nucleotide substitution for protein-coding DNA sequences. Mol Biol Evol 11:725-736
-
(1994)
Mol Biol Evol
, vol.11
, pp. 725-736
-
-
Goldman, N.1
Yang, Z.2
-
10
-
-
0019812890
-
The persistence of papovavirus BK DNA sequences in normal human renal tissue
-
Heritage J, Chesters PM, McCance DJ (1981) The persistence of papovavirus BK DNA sequences in normal human renal tissue. J Med Virol 8:143-150
-
(1981)
J Med Virol
, vol.8
, pp. 143-150
-
-
Heritage, J.1
Chesters, P.M.2
McCance, D.J.3
-
11
-
-
21144443075
-
Polyomavirus-associated nephropathy in renal transplantation: Interdisciplinary analyses and recommendations
-
Hirsch HH, Brennan DC, Drachenberg CB, Ginevri F, Gordon J, Limaye AP, Mihatsch MJ, Nickeleit V, Ramos E, Randhawa P, Shapiro R, Steiger J, Suthanthiran M, Trofe J (2005) Polyomavirus-associated nephropathy in renal transplantation: interdisciplinary analyses and recommendations. Transplantation 79:1277-1286
-
(2005)
Transplantation
, vol.79
, pp. 1277-1286
-
-
Hirsch, H.H.1
Brennan, D.C.2
Drachenberg, C.B.3
Ginevri, F.4
Gordon, J.5
Limaye, A.P.6
Mihatsch, M.J.7
Nickeleit, V.8
Ramos, E.9
Randhawa, P.10
Shapiro, R.11
Steiger, J.12
Suthanthiran, M.13
Trofe, J.14
-
12
-
-
33750276374
-
Identification of a genomic subgroup of BK polyomavirus spread in European populations
-
Ikegaya H, Saukko PJ, Tertti R, Metsärinne KP, Carr MJ, Crowley B, Sakurada K, Zheng HY, Kitamura T, Yogo Y (2006) Identification of a genomic subgroup of BK polyomavirus spread in European populations. J Gen Virol 87:3201-3208
-
(2006)
J Gen Virol
, vol.87
, pp. 3201-3208
-
-
Ikegaya, H.1
Saukko, P.J.2
Tertti, R.3
Metsärinne, K.P.4
Carr, M.J.5
Crowley, B.6
Sakurada, K.7
Zheng, H.Y.8
Kitamura, T.9
Yogo, Y.10
-
13
-
-
0027184598
-
Genomic typing of BK virus in clinical specimens by direct sequencing of polymerase chain reaction products
-
Jin L, Gibson PE, Booth JC, Clewley JP (1993) Genomic typing of BK virus in clinical specimens by direct sequencing of polymerase chain reaction products. J Med Virol 41:11-17
-
(1993)
J Med Virol
, vol.41
, pp. 11-17
-
-
Jin, L.1
Gibson, P.E.2
Booth, J.C.3
Clewley, J.P.4
-
14
-
-
0028903177
-
Prevalence and distribution of BK virus subtypes in healthy people and immunocompromised patients detected by PCR-restriction enzyme analysis
-
Jin L, Pietropaolo V, Booth JC, Ward KH, Brown DW (1995) Prevalence and distribution of BK virus subtypes in healthy people and immunocompromised patients detected by PCR-restriction enzyme analysis. Clin Diag Virol 3:285-295
-
(1995)
Clin Diag Virol
, vol.3
, pp. 285-295
-
-
Jin, L.1
Pietropaolo, V.2
Booth, J.C.3
Ward, K.H.4
Brown, D.W.5
-
15
-
-
13744252890
-
MAFFT version 5: Improvement in accuracy of multiple sequence alignment
-
Katoh K, Kuma K, Toh H, Miyata T (2005) MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res 33: 511-518
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 511-518
-
-
Katoh, K.1
Kuma, K.2
Toh, H.3
Miyata, T.4
-
16
-
-
0024307824
-
Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea
-
Kishino H, Hasegawa M (1989) Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea. J Mol Evol 29:170-179
-
(1989)
J Mol Evol
, vol.29
, pp. 170-179
-
-
Kishino, H.1
Hasegawa, M.2
-
17
-
-
0025181359
-
Maximum likelihood inference of protein phylogeny, and the origin of chloroplasts
-
Kishino H, Miyata T, Hasegawa M (1990) Maximum likelihood inference of protein phylogeny, and the origin of chloroplasts. J Mol Evol 31:151-160
-
(1990)
J Mol Evol
, vol.31
, pp. 151-160
-
-
Kishino, H.1
Miyata, T.2
Hasegawa, M.3
-
19
-
-
33750562751
-
Prevalence of BK virus subtype I in Germany
-
Krumbholz A, Zell R, Egerer R, Sauerbrei A, Helming A, Gruhn B, Wutzler P (2006) Prevalence of BK virus subtype I in Germany. J Med Virol 78:1588-1598
-
(2006)
J Med Virol
, vol.78
, pp. 1588-1598
-
-
Krumbholz, A.1
Zell, R.2
Egerer, R.3
Sauerbrei, A.4
Helming, A.5
Gruhn, B.6
Wutzler, P.7
-
20
-
-
33745607996
-
Evolution of BK virus based on complete genome data
-
Nishimoto Y, Takasaka T, Hasegawa M, Zheng HY, Chen Q, Sugimoto C, Kitamura T, Yogo Y (2006) Evolution of BK virus based on complete genome data. J Mol Evol 63:341-352
-
(2006)
J Mol Evol
, vol.63
, pp. 341-352
-
-
Nishimoto, Y.1
Takasaka, T.2
Hasegawa, M.3
Zheng, H.Y.4
Chen, Q.5
Sugimoto, C.6
Kitamura, T.7
Yogo, Y.8
-
22
-
-
33744908576
-
Comparing phylogenetic codivergence between polyomaviruses and their hosts
-
Perez-Losada M, Christensen RG, McClellan DA, Adams BJ, Viscidi RP, Demma JC, Crandall KA (2006) Comparing phylogenetic codivergence between polyomaviruses and their hosts. J Virol 80:5663-5669
-
(2006)
J Virol
, vol.80
, pp. 5663-5669
-
-
Perez-Losada, M.1
Christensen, R.G.2
McClellan, D.A.3
Adams, B.J.4
Viscidi, R.P.5
Demma, J.C.6
Crandall, K.A.7
-
23
-
-
0031773680
-
MODELTEST: Testing the model of DNA substitution
-
Posada D, Crandall KA (1998) MODELTEST: testing the model of DNA substitution. Bioinformatics 14:817-818
-
(1998)
Bioinformatics
, vol.14
, pp. 817-818
-
-
Posada, D.1
Crandall, K.A.2
-
24
-
-
0000262278
-
GENEPOP (version 1.2): A population genetic software for exact tests and ecumenicism
-
Raymond M, Rousset F (1995) GENEPOP (version 1.2): a population genetic software for exact tests and ecumenicism. J Hered 86:248-249
-
(1995)
J Hered
, vol.86
, pp. 248-249
-
-
Raymond, M.1
Rousset, F.2
-
27
-
-
0018611461
-
The genome of human papovavirus BKV
-
Seif I, Khoury G, Dhar R (1979) The genome of human papovavirus BKV. Cell 18:963-977
-
(1979)
Cell
, vol.18
, pp. 963-977
-
-
Seif, I.1
Khoury, G.2
Dhar, R.3
-
28
-
-
33749476612
-
JC virus evolution and its association with human populations
-
Shackelton LA, Rambaut A, Pybus OG, Holmes EC (2006) JC virus evolution and its association with human populations. J Virol 80:9928-9933
-
(2006)
J Virol
, vol.80
, pp. 9928-9933
-
-
Shackelton, L.A.1
Rambaut, A.2
Pybus, O.G.3
Holmes, E.C.4
-
29
-
-
0036623258
-
An approximately unbiased test of phylogenetic tree selection
-
Simodaira H (2002) An approximately unbiased test of phylogenetic tree selection. Syst Biol 51:492-508
-
(2002)
Syst Biol
, vol.51
, pp. 492-508
-
-
Shimodaira, H.1
-
30
-
-
0036139287
-
CONSEL: For assessing the confidence of phylogenetic tree selection
-
Shimodaira H, Hasegawa M (2001) CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics 17:1246-1247
-
(2001)
Bioinformatics
, vol.17
, pp. 1246-1247
-
-
Shimodaira, H.1
Hasegawa, M.2
-
31
-
-
0036175673
-
Evolution of human polyomavirus JC: Implications for the population history of humans
-
Sugimoto C, Hasegawa M, Kato A, Zheng HY, Ebihara H, Taguchi F, Kitamura T, Yogo Y (2002) Evolution of human polyomavirus JC: implications for the population history of humans. J Mol Evol 54:285-297
-
(2002)
J Mol Evol
, vol.54
, pp. 285-297
-
-
Sugimoto, C.1
Hasegawa, M.2
Kato, A.3
Zheng, H.Y.4
Ebihara, H.5
Taguchi, F.6
Kitamura, T.7
Yogo, Y.8
-
33
-
-
5444221918
-
Subtypes of BK virus prevalent in Japan and variation in their transcriptional control region
-
Takasaka T, Goya N, Tokumoto T, Tanabe K, Toma H, Ogawa Y, Hokama S, Momose A, Funyu T, Fujioka T, Omori S, Akiyama H, Chen Q, Zheng HY, Ohta N, Kitamura T, Yogo Y (2004) Subtypes of BK virus prevalent in Japan and variation in their transcriptional control region. J Gen Virol 85:2821-2827
-
(2004)
J Gen Virol
, vol.85
, pp. 2821-2827
-
-
Takasaka, T.1
Goya, N.2
Tokumoto, T.3
Tanabe, K.4
Toma, H.5
Ogawa, Y.6
Hokama, S.7
Momose, A.8
Funyu, T.9
Fujioka, T.10
Omori, S.11
Akiyama, H.12
Chen, Q.13
Zheng, H.Y.14
Ohta, N.15
Kitamura, T.16
Yogo, Y.17
-
34
-
-
0024577034
-
Nucleotide sequence of the human polyomavirus AS virus, an antigenic variant of BK virus
-
Tavis JE, Walker DL, Gardner SD, Frisque RJ (1989) Nucleotide sequence of the human polyomavirus AS virus, an antigenic variant of BK virus. J Virol 63:901-911
-
(1989)
J Virol
, vol.63
, pp. 901-911
-
-
Tavis, J.E.1
Walker, D.L.2
Gardner, S.D.3
Frisque, R.J.4
-
35
-
-
0001909391
-
Do human and JC virus genes show evidence of host-parasite codemography?
-
Wooding S (2001) Do human and JC virus genes show evidence of host-parasite codemography? Infect Genet Evol 1:3-12
-
(2001)
Infect Genet Evol
, vol.1
, pp. 3-12
-
-
Wooding, S.1
-
36
-
-
0030451420
-
Among-site rate variation and its impact on phylogenetic analyses
-
Yang Z (1996) Among-site rate variation and its impact on phylogenetic analyses. TREE 11:367-372
-
(1996)
TREE
, vol.11
, pp. 367-372
-
-
Yang, Z.1
-
37
-
-
0030683599
-
PAML: A program package for phylogenetic analysis by maximum likelihood
-
Yang Z (1997) PAML: a program package for phylogenetic analysis by maximum likelihood. CABIOS 13:555-556
-
(1997)
CABIOS
, vol.13
, pp. 555-556
-
-
Yang, Z.1
-
38
-
-
0031792828
-
Models of amino acid substitution and applications to mitochondrial protein evolution
-
Yang Z, Nielsen R, Hasegawa M (1998) Models of amino acid substitution and applications to mitochondrial protein evolution. Mol Biol Evol 15:1600-1611
-
(1998)
Mol Biol Evol
, vol.15
, pp. 1600-1611
-
-
Yang, Z.1
Nielsen, R.2
Hasegawa, M.3
-
39
-
-
2442471217
-
JC virus genotyping offers a new paradigm in the study of human populations
-
Yogo Y, Sugimoto C, Zheng HY, Ikegaya H, Takasaka T, Kitamura T (2004) JC virus genotyping offers a new paradigm in the study of human populations. Rev Med Virol 14:179-191
-
(2004)
Rev Med Virol
, vol.14
, pp. 179-191
-
-
Yogo, Y.1
Sugimoto, C.2
Zheng, H.Y.3
Ikegaya, H.4
Takasaka, T.5
Kitamura, T.6
-
40
-
-
33846857961
-
Relationships between BK virus lineages and human populations
-
Zheng HY, Nishimoto Y, Chen Q, Hasegawa M, Zhong S, Ikegaya H, Ohno N, Sugimoto C, Takasaka T, Kitamura T, Yogo Y (2007) Relationships between BK virus lineages and human populations. Microbes Infect 9:204-213
-
(2007)
Microbes Infect
, vol.9
, pp. 204-213
-
-
Zheng, H.Y.1
Nishimoto, Y.2
Chen, Q.3
Hasegawa, M.4
Zhong, S.5
Ikegaya, H.6
Ohno, N.7
Sugimoto, C.8
Takasaka, T.9
Kitamura, T.10
Yogo, Y.11
-
41
-
-
33846225142
-
Age-related urinary excretion of BK polyomavirus by nonimmunocompromised individuals
-
Zhong S, Zheng HY, Chen Q, Ikegaya H, Suzuki M, Aoki N, Usuku S, Kobayashi N, Nukuzuma S, Yasuda Y, Kuniyoshi N, Yogo Y, Kitamura T (2007) Age-related urinary excretion of BK polyomavirus by nonimmunocompromised individuals. J Clin Microbiol 45:193-198
-
(2007)
J Clin Microbiol
, vol.45
, pp. 193-198
-
-
Zhong, S.1
Zheng, H.Y.2
Suzuki, M.3
Chen, Q.4
Ikegaya, H.5
Aoki, N.6
Usuku, S.7
Kobayashi, N.8
Nukuzuma, S.9
Yasuda, Y.10
Kuniyoshi, N.11
Yogo, Y.12
Kitamura, T.13
|