메뉴 건너뛰기




Volumn 239, Issue , 2017, Pages 136-142

Origins and challenges of viral dark matter

Author keywords

Viral dark matter; Viral metagenome; Virome; Virus discovery

Indexed keywords

DOUBLE STRANDED RNA; VIRUS RNA;

EID: 85013159173     PISSN: 01681702     EISSN: 18727492     Source Type: Journal    
DOI: 10.1016/j.virusres.2017.02.002     Document Type: Review
Times cited : (161)

References (84)
  • 2
    • 84898943386 scopus 로고    scopus 로고
    • The influence of CpG and UpA dinucleotide frequencies on RNA virus replication and characterization of the innate cellular pathways underlying virus attenuation and enhanced replication
    • Atkinson, N.J., Witteveldt, J., Evans, D.J., Simmonds, P., The influence of CpG and UpA dinucleotide frequencies on RNA virus replication and characterization of the innate cellular pathways underlying virus attenuation and enhanced replication. Nucleic Acids Res. 42:7 (2014), 4527–4545.
    • (2014) Nucleic Acids Res. , vol.42 , Issue.7 , pp. 4527-4545
    • Atkinson, N.J.1    Witteveldt, J.2    Evans, D.J.3    Simmonds, P.4
  • 4
    • 0022743812 scopus 로고
    • A measure of the similarity of sets of sequences not requiring sequence alignment
    • Blaisdell, B.E., A measure of the similarity of sets of sequences not requiring sequence alignment. Proc. Natl. Acad. Sci. U. S. A. 83:14 (1986), 5155–5159.
    • (1986) Proc. Natl. Acad. Sci. U. S. A. , vol.83 , Issue.14 , pp. 5155-5159
    • Blaisdell, B.E.1
  • 5
    • 84861313038 scopus 로고    scopus 로고
    • Identification of novel positive-Strand RNA viruses by metagenomic analysis of archaea-Dominated yellowstone hot springs
    • Bolduc, B., Shaughnessy, D.P., Wolf, Y.I., Koonin, E.V., Roberto, F.F., Young, M., Identification of novel positive-Strand RNA viruses by metagenomic analysis of archaea-Dominated yellowstone hot springs. J. Virol. 86:10 (2012), 5562–5573.
    • (2012) J. Virol. , vol.86 , Issue.10 , pp. 5562-5573
    • Bolduc, B.1    Shaughnessy, D.P.2    Wolf, Y.I.3    Koonin, E.V.4    Roberto, F.F.5    Young, M.6
  • 6
    • 69549135124 scopus 로고    scopus 로고
    • Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models
    • Brady, A., Salzberg, S.L., Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models. Nat. Methods 6 (2009), 673–676.
    • (2009) Nat. Methods , vol.6 , pp. 673-676
    • Brady, A.1    Salzberg, S.L.2
  • 7
    • 84925021592 scopus 로고    scopus 로고
    • Fast and sensitive protein alignment using DIAMOND
    • Buchfink, B., Xie, C., Huson, D.H., Fast and sensitive protein alignment using DIAMOND. Nat. Methods 12 (2014), 59–60.
    • (2014) Nat. Methods , vol.12 , pp. 59-60
    • Buchfink, B.1    Xie, C.2    Huson, D.H.3
  • 8
    • 84884511403 scopus 로고    scopus 로고
    • CpG usage in RNA viruses: data and hypotheses
    • Cheng, X., Virk, N., Chen, W., Ji, S., Ji, S., Sun, Y., Wu, X., CpG usage in RNA viruses: data and hypotheses. PLoS One, 8(9), 2013, e74109.
    • (2013) PLoS One , vol.8 , Issue.9 , pp. e74109
    • Cheng, X.1    Virk, N.2    Chen, W.3    Ji, S.4    Ji, S.5    Sun, Y.6    Wu, X.7
  • 10
    • 84899915701 scopus 로고    scopus 로고
    • Analysis of double-stranded RNA from microbial communities identifies double-stranded RNA virus-like elements
    • Decker, Carolyn J., Parker, R., Analysis of double-stranded RNA from microbial communities identifies double-stranded RNA virus-like elements. Cell Rep. 7 (2014), 898–906.
    • (2014) Cell Rep. , vol.7 , pp. 898-906
    • Decker, C.J.1    Parker, R.2
  • 12
    • 62549109116 scopus 로고    scopus 로고
    • TACOA: taxonomic classification of environmental genomic fragments using a kernelized nearest neighbor approach
    • Diaz, N.N., Krause, L., Goesmann, A., Niehaus, K., Nattkemper, T.W., TACOA: taxonomic classification of environmental genomic fragments using a kernelized nearest neighbor approach. BMC Bioinf., 10, 2009, 56.
    • (2009) BMC Bioinf. , vol.10 , pp. 56
    • Diaz, N.N.1    Krause, L.2    Goesmann, A.3    Niehaus, K.4    Nattkemper, T.W.5
  • 13
    • 0033736206 scopus 로고    scopus 로고
    • The covariation between TpA deficiency, CpG deficiency, and G + C content of human isochores is due to a mathematical artifact
    • Duret, L., Galtier, N., The covariation between TpA deficiency, CpG deficiency, and G + C content of human isochores is due to a mathematical artifact. Mol. Biol. Evol. 17:11 (2000), 1620–1625.
    • (2000) Mol. Biol. Evol. , vol.17 , Issue.11 , pp. 1620-1625
    • Duret, L.1    Galtier, N.2
  • 17
    • 79959931985 scopus 로고    scopus 로고
    • HMMER web server: interactive sequence similarity searching
    • Finn, R.D., Clements, J., Eddy, S.R., HMMER web server: interactive sequence similarity searching. Nucleic Acids Res. 17:May (2011), 29–37.
    • (2011) Nucleic Acids Res. , vol.17 , Issue.May , pp. 29-37
    • Finn, R.D.1    Clements, J.2    Eddy, S.R.3
  • 19
    • 0029803124 scopus 로고    scopus 로고
    • Viroids proper can be distinguished from hammerhead viroids and satellite RNAs through their dinucleotide composition
    • Gast, F.U., Spieker, R.L., Viroids proper can be distinguished from hammerhead viroids and satellite RNAs through their dinucleotide composition. Arch. Virol 141:9 (1996), 1775–1783.
    • (1996) Arch. Virol , vol.141 , Issue.9 , pp. 1775-1783
    • Gast, F.U.1    Spieker, R.L.2
  • 23
    • 0027399530 scopus 로고
    • Identification of protein coding regions by database similarity search
    • Gish, W., States, D.J., Identification of protein coding regions by database similarity search. Nat. Genet. 3:3 (1993), 266–272.
    • (1993) Nat. Genet. , vol.3 , Issue.3 , pp. 266-272
    • Gish, W.1    States, D.J.2
  • 24
    • 84963969179 scopus 로고    scopus 로고
    • PhyloPythiaS+: a self-training method for the rapid reconstruction of low-ranking taxonomic bins from metagenomes
    • Gregor, I., Dröge, J., Schirmer, M., Quince, C., McHardy, A.C., PhyloPythiaS+: a self-training method for the rapid reconstruction of low-ranking taxonomic bins from metagenomes. PeerJ, 4, 2016, e1603.
    • (2016) PeerJ , vol.4 , pp. e1603
    • Gregor, I.1    Dröge, J.2    Schirmer, M.3    Quince, C.4    McHardy, A.C.5
  • 25
    • 85008478185 scopus 로고    scopus 로고
    • Draft Genome Sequences of Leviviridae RNA Phages EC and MB Recovered from San Francisco Wastewater
    • Greninger, A.L., Derisi, L., Draft Genome Sequences of Leviviridae RNA Phages EC and MB Recovered from San Francisco Wastewater. Genome Announc. 3:3 (2015), 9–10.
    • (2015) Genome Announc. , vol.3 , Issue.3 , pp. 9-10
    • Greninger, A.L.1    Derisi, L.2
  • 28
    • 0020578810 scopus 로고
    • Capped and conserved terminal structures in human rotavirus genome double-stranded RNA segments
    • Imai, M., Akatani, K., Ikegami, N., Furuichi, Y., Capped and conserved terminal structures in human rotavirus genome double-stranded RNA segments. J. Virol. 47 (1983), 125–136.
    • (1983) J. Virol. , vol.47 , pp. 125-136
    • Imai, M.1    Akatani, K.2    Ikegami, N.3    Furuichi, Y.4
  • 29
    • 84872259257 scopus 로고    scopus 로고
    • A virological view of innate immune recognition
    • Iwasaki, A., A virological view of innate immune recognition. Annu. Rev. Microbiol. 66 (2012), 177–196.
    • (2012) Annu. Rev. Microbiol. , vol.66 , pp. 177-196
    • Iwasaki, A.1
  • 30
    • 77956846403 scopus 로고    scopus 로고
    • Use of nucleotide composition analysis to infer hosts for three novel picorna-like viruses
    • Kapoor, a., Simmonds, P., Lipkin, W.I., Zaidi, S., Delwart, E., Use of nucleotide composition analysis to infer hosts for three novel picorna-like viruses. J. Virol. 84:19 (2010), 10322–10328.
    • (2010) J. Virol. , vol.84 , Issue.19 , pp. 10322-10328
    • Kapoor, A.1    Simmonds, P.2    Lipkin, W.I.3    Zaidi, S.4    Delwart, E.5
  • 31
    • 0030923586 scopus 로고    scopus 로고
    • Compositional differences within and between eukaryotic genomes
    • Karlin, S., Mrázek, J., Compositional differences within and between eukaryotic genomes. Proc. Natl. Acad. Sci. U. S. A. 94:19 (1997), 10227–10232.
    • (1997) Proc. Natl. Acad. Sci. U. S. A. , vol.94 , Issue.19 , pp. 10227-10232
    • Karlin, S.1    Mrázek, J.2
  • 32
    • 84978043569 scopus 로고    scopus 로고
    • The intestinal eukaryotic virome in healthy and diarrhoeic neonatal piglets
    • Karlsson, O.E., Larsson, J., Hayer, J., Berg, M., Jacobson, M., The intestinal eukaryotic virome in healthy and diarrhoeic neonatal piglets. PLoS One 11 (2016), 1–16.
    • (2016) PLoS One , vol.11 , pp. 1-16
    • Karlsson, O.E.1    Larsson, J.2    Hayer, J.3    Berg, M.4    Jacobson, M.5
  • 33
    • 84930074657 scopus 로고    scopus 로고
    • The Phyre2 web portal for protein modeling, prediction and analysis
    • Kelley, L.A., Mezulis, S., Yates, C.M., Wass, M.N., Sternberg, M.J.E., The Phyre2 web portal for protein modeling, prediction and analysis. Nat. Protoc. 10:6 (2015), 845–858.
    • (2015) Nat. Protoc. , vol.10 , Issue.6 , pp. 845-858
    • Kelley, L.A.1    Mezulis, S.2    Yates, C.M.3    Wass, M.N.4    Sternberg, M.J.E.5
  • 34
    • 84924029843 scopus 로고    scopus 로고
    • Evaluation of methods to purify virus-like particles for metagenomic sequencing of intestinal viromes
    • Kleiner, M., Hooper, L.V., Duerkop, B.A., Evaluation of methods to purify virus-like particles for metagenomic sequencing of intestinal viromes. BMC Genomics, 16, 2015, 7.
    • (2015) BMC Genomics , vol.16 , pp. 7
    • Kleiner, M.1    Hooper, L.V.2    Duerkop, B.A.3
  • 35
    • 0035220937 scopus 로고    scopus 로고
    • A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes
    • (RESEARCH 0010)
    • Knight, R.D., Freeland, S.J., Landweber, L.F., A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes. Genome Biol., 2(4), 2001 (RESEARCH 0010).
    • (2001) Genome Biol. , vol.2 , Issue.4
    • Knight, R.D.1    Freeland, S.J.2    Landweber, L.F.3
  • 37
    • 67349170750 scopus 로고    scopus 로고
    • Complete viral genome sequence and discovery of novel viruses by deep sequencing of small RNAs: a generic method for diagnosis, discovery and sequencing of viruses
    • Kreuze, J.F., Perez, A., Untiveros, M., Quispe, D., Fuentes, S., Barker, I., Simon, R., Complete viral genome sequence and discovery of novel viruses by deep sequencing of small RNAs: a generic method for diagnosis, discovery and sequencing of viruses. Virology 388 (2009), 1–7.
    • (2009) Virology , vol.388 , pp. 1-7
    • Kreuze, J.F.1    Perez, A.2    Untiveros, M.3    Quispe, D.4    Fuentes, S.5    Barker, I.6    Simon, R.7
  • 40
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with bowtie 2
    • Langmead, B., Salzberg, S.L., Fast gapped-read alignment with bowtie 2. Nat. Methods 9:4 (2012), 357–359.
    • (2012) Nat. Methods , vol.9 , Issue.4 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 41
    • 0030805223 scopus 로고    scopus 로고
    • The fourth genus in the Orthomyxoviridae: sequence analyses of two Thogoto virus polymerase proteins and comparison with influenza viruses
    • Leahy, M.B., Dessens, J.T., Weber, F., Kochs, G., Nuttall, P.A., The fourth genus in the Orthomyxoviridae: sequence analyses of two Thogoto virus polymerase proteins and comparison with influenza viruses. Virus Res. 50 (1997), 215–224.
    • (1997) Virus Res. , vol.50 , pp. 215-224
    • Leahy, M.B.1    Dessens, J.T.2    Weber, F.3    Kochs, G.4    Nuttall, P.A.5
  • 42
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li, H., Durbin, R., Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25 (2009), 1754–1760.
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 44
    • 84906307746 scopus 로고    scopus 로고
    • Fungal negative-stranded RNA virus that is related to bornaviruses and nyaviruses
    • Liu, L., Xie, J., Cheng, J., Fu, Y., Li, G., Yi, X., Jiang, D., Fungal negative-stranded RNA virus that is related to bornaviruses and nyaviruses. Proc. Natl. Acad. Sci. U. S. A. 111:33 (2014), 1–6.
    • (2014) Proc. Natl. Acad. Sci. U. S. A. , vol.111 , Issue.33 , pp. 1-6
    • Liu, L.1    Xie, J.2    Cheng, J.3    Fu, Y.4    Li, G.5    Yi, X.6    Jiang, D.7
  • 46
    • 80053379379 scopus 로고    scopus 로고
    • TheViral MetaGenome Annotation Pipeline(VMGAP):an automated tool for the functional annotation of viral Metagenomic shotgun sequencing data
    • Lorenzi, H.A., Hoover, J., Inman, J., Safford, T., Murphy, S., Kagan, L., Williamson, S.J., TheViral MetaGenome Annotation Pipeline(VMGAP):an automated tool for the functional annotation of viral Metagenomic shotgun sequencing data. Stand. Genomic Sci. 4:3 (2011), 418–429.
    • (2011) Stand. Genomic Sci. , vol.4 , Issue.3 , pp. 418-429
    • Lorenzi, H.A.1    Hoover, J.2    Inman, J.3    Safford, T.4    Murphy, S.5    Kagan, L.6    Williamson, S.J.7
  • 48
    • 84958817386 scopus 로고    scopus 로고
    • Novel mycoviruses discovered from metatranscriptomics survey of soybean phyllosphere phytobiomes
    • Marzano, S.-Y.L., Domier, L., Novel mycoviruses discovered from metatranscriptomics survey of soybean phyllosphere phytobiomes. Virus Res. 213 (2015), 332–342.
    • (2015) Virus Res. , vol.213 , pp. 332-342
    • Marzano, S.-Y.L.1    Domier, L.2
  • 49
    • 34047114426 scopus 로고    scopus 로고
    • A novel, multipartite, negative-strand RNA virus is associated with the ringspot disease of European mountain ash (Sorbus aucuparia L.)
    • Mielke, N., Muehlbach, H.-P., A novel, multipartite, negative-strand RNA virus is associated with the ringspot disease of European mountain ash (Sorbus aucuparia L.). J. Gen. Virol. 88:Pt 4 (2007), 1337–1346.
    • (2007) J. Gen. Virol. , vol.88 , pp. 1337-1346
    • Mielke, N.1    Muehlbach, H.-P.2
  • 51
    • 0023991207 scopus 로고
    • Nucleotide sequence of the large double-stranded RNA segment of bacteriophage phi 6: genes specifying the viral replicase and transcriptase
    • Mindich, L., Nemhauser, I., Gottlieb, P., Romantschuk, M., Carton, J., Frucht, S., Strassman, J., Bamford, D.H., Kalkkinen, N., Nucleotide sequence of the large double-stranded RNA segment of bacteriophage phi 6: genes specifying the viral replicase and transcriptase. J. Virol. 62 (1988), 1180–1185.
    • (1988) J. Virol. , vol.62 , pp. 1180-1185
    • Mindich, L.1    Nemhauser, I.2    Gottlieb, P.3    Romantschuk, M.4    Carton, J.5    Frucht, S.6    Strassman, J.7    Bamford, D.H.8    Kalkkinen, N.9
  • 56
    • 79251560623 scopus 로고    scopus 로고
    • RAIphy: phylogenetic classification of metagenomics samples using iterative refinement of relative abundance index profiles
    • Nalbantoglu, O.U., Way, S.F., Hinrichs, S.H., Sayood, K., RAIphy: phylogenetic classification of metagenomics samples using iterative refinement of relative abundance index profiles. BMC Bioinf., 12, 2011, 41.
    • (2011) BMC Bioinf. , vol.12 , pp. 41
    • Nalbantoglu, O.U.1    Way, S.F.2    Hinrichs, S.H.3    Sayood, K.4
  • 57
    • 84949058006 scopus 로고    scopus 로고
    • Multiple approaches for the detection and characterization of viral and plasmid symbionts from a collection of marine fungi
    • Nerva, L., Ciuffo, M., Vallino, M., Margaria, P., Varese, G.C., Gnavi, G., Turina, M., Multiple approaches for the detection and characterization of viral and plasmid symbionts from a collection of marine fungi. Virus Res., 2015.
    • (2015) Virus Res.
    • Nerva, L.1    Ciuffo, M.2    Vallino, M.3    Margaria, P.4    Varese, G.C.5    Gnavi, G.6    Turina, M.7
  • 58
    • 79961139783 scopus 로고    scopus 로고
    • Classifying short genomic fragments from novel lineages using composition and homology
    • Parks, D.H., MacDonald, N.J., Beiko, R.G., Classifying short genomic fragments from novel lineages using composition and homology. BMC Bioinf., 12, 2011, 328.
    • (2011) BMC Bioinf. , vol.12 , pp. 328
    • Parks, D.H.1    MacDonald, N.J.2    Beiko, R.G.3
  • 60
    • 0034353192 scopus 로고    scopus 로고
    • A novel RNA mycovirus in a hypovirulent isolate of the plant pathogen Diaporthe ambigua
    • Preisig, O., Moleleki, N., Smit a, W., Wingfield, B.D., Wingfield, M.J., A novel RNA mycovirus in a hypovirulent isolate of the plant pathogen Diaporthe ambigua. J. Gen. Virol. 81:Pt 12 (2000), 3107–3114.
    • (2000) J. Gen. Virol. , vol.81 , pp. 3107-3114
    • Preisig, O.1    Moleleki, N.2    Smit a, W.3    Wingfield, B.D.4    Wingfield, M.J.5
  • 63
    • 84856363643 scopus 로고    scopus 로고
    • NBC update: the addition of viral and fungal databases to the Naïve Bayes classification tool
    • Rosen, G.L., Lim, T.Y., NBC update: the addition of viral and fungal databases to the Naïve Bayes classification tool. BMC Res. Notes, 5, 2012, 81.
    • (2012) BMC Res. Notes , vol.5 , pp. 81
    • Rosen, G.L.1    Lim, T.Y.2
  • 65
    • 78650549608 scopus 로고    scopus 로고
    • NBC: the Naive Bayes Classification tool webserver for taxonomic classification of metagenomic reads
    • Rosen, G.L., Reichenberger, E.R., Rosenfeld, A.M., NBC: the Naive Bayes Classification tool webserver for taxonomic classification of metagenomic reads. Bioinf. (Oxford England) 27:1 (2011), 127–129.
    • (2011) Bioinf. (Oxford England) , vol.27 , Issue.1 , pp. 127-129
    • Rosen, G.L.1    Reichenberger, E.R.2    Rosenfeld, A.M.3
  • 66
    • 84930658013 scopus 로고    scopus 로고
    • VirSorter: mining viral signal from microbial genomic data
    • Roux, S., Enault, F., Hurwitz, B.L., Sullivan, M.B., VirSorter: mining viral signal from microbial genomic data. PeerJ, 3, 2015, e985.
    • (2015) PeerJ , vol.3 , pp. e985
    • Roux, S.1    Enault, F.2    Hurwitz, B.L.3    Sullivan, M.B.4
  • 67
    • 84939526110 scopus 로고    scopus 로고
    • Viral dark matter and virus-host interactions resolved from publicly available microbial genomes
    • Roux, S., Hallam, S.J., Woyke, T., Sullivan, M.B., Viral dark matter and virus-host interactions resolved from publicly available microbial genomes. eLife, 4(January), 2015, e08490.
    • (2015) eLife , vol.4 , Issue.January , pp. e08490
    • Roux, S.1    Hallam, S.J.2    Woyke, T.3    Sullivan, M.B.4
  • 68
    • 0021020535 scopus 로고
    • Analysis of Hantaan virus RNA: evidence for a new genus of bunyaviridae
    • Schmaljohn, C.S., Dalrymple, J.M., Analysis of Hantaan virus RNA: evidence for a new genus of bunyaviridae. Virology 131 (1983), 482–491.
    • (1983) Virology , vol.131 , pp. 482-491
    • Schmaljohn, C.S.1    Dalrymple, J.M.2
  • 72
    • 84883609173 scopus 로고    scopus 로고
    • Modelling mutational and selection pressures on dinucleotides in eukaryotic phyla—selection against CpG and UpA in cytoplasmically expressed RNA and in RNA viruses
    • Simmonds, P., Xia, W., Baillie, J.K., McKinnon, K., Modelling mutational and selection pressures on dinucleotides in eukaryotic phyla—selection against CpG and UpA in cytoplasmically expressed RNA and in RNA viruses. BMC Genomics, 14(1), 2013, 1.
    • (2013) BMC Genomics , vol.14 , Issue.1 , pp. 1
    • Simmonds, P.1    Xia, W.2    Baillie, J.K.3    McKinnon, K.4
  • 73
    • 84927160004 scopus 로고    scopus 로고
    • Profile hidden markov models for the detection of viruses within metagenomic sequence data
    • Skewes-Cox, P., Sharpton, T.J., Pollard, K.S., DeRisi, J.L., Profile hidden markov models for the detection of viruses within metagenomic sequence data. PLoS One, 9(8), 2014, e105067.
    • (2014) PLoS One , vol.9 , Issue.8 , pp. e105067
    • Skewes-Cox, P.1    Sharpton, T.J.2    Pollard, K.S.3    DeRisi, J.L.4
  • 74
    • 0025651652 scopus 로고
    • Complementarity between the 5'- and 3'-terminal sequences of rice stripe virus RNAs
    • Takahashi, M., Toriyama, S., Kikuchi, Y., Hayakawa, T., Ishihama a, Complementarity between the 5'- and 3'-terminal sequences of rice stripe virus RNAs. J. Gen. Virol. 71:Pt 12 (1990), 2817–2821.
    • (1990) J. Gen. Virol. , vol.71 , pp. 2817-2821
    • Takahashi, M.1    Toriyama, S.2    Kikuchi, Y.3    Hayakawa, T.4    Ishihama, A.5
  • 75
    • 84906987221 scopus 로고    scopus 로고
    • Virome analysis of Amblyomma americanum, Dermacentor variabilis, and Ixodes scapularis ticks reveals novel highly divergent vertebrate and invertebrate viruses
    • Tokarz, R., Williams, S.H., Sameroff, S., Sanchez Leon, M., Jain, K., Lipkin, W.I., Virome analysis of Amblyomma americanum, Dermacentor variabilis, and Ixodes scapularis ticks reveals novel highly divergent vertebrate and invertebrate viruses. J. Virol. 88 (2014), 11480–11492.
    • (2014) J. Virol. , vol.88 , pp. 11480-11492
    • Tokarz, R.1    Williams, S.H.2    Sameroff, S.3    Sanchez Leon, M.4    Jain, K.5    Lipkin, W.I.6
  • 76
    • 85003348904 scopus 로고    scopus 로고
    • RNA virus attenuation by codon pair deoptimisation is an artefact of increases in CpG/UpA dinucleotide frequencies
    • Tulloch, F., Atkinson, N.J., Evans, D.J., Ryan, M.D., Simmonds, P., RNA virus attenuation by codon pair deoptimisation is an artefact of increases in CpG/UpA dinucleotide frequencies. Elife, 2014, 1–15.
    • (2014) Elife , pp. 1-15
    • Tulloch, F.1    Atkinson, N.J.2    Evans, D.J.3    Ryan, M.D.4    Simmonds, P.5
  • 78
    • 84863229993 scopus 로고    scopus 로고
    • Homology-independent discovery of replicating pathogenic circular RNAs by deep sequencing and a new computational algorithm
    • Wu, Q., Wang, Y., Cao, M., Pantaleo, V., Burgyan, J., Li, W.-X., Ding, S.-W., Homology-independent discovery of replicating pathogenic circular RNAs by deep sequencing and a new computational algorithm. Proc. Natl. Acad. Sci. 109 (2012), 3938–3943.
    • (2012) Proc. Natl. Acad. Sci. , vol.109 , pp. 3938-3943
    • Wu, Q.1    Wang, Y.2    Cao, M.3    Pantaleo, V.4    Burgyan, J.5    Li, W.-X.6    Ding, S.-W.7
  • 79
    • 84863229993 scopus 로고    scopus 로고
    • Homology-independent discovery of replicating pathogenic circular RNAs by deep sequencing and a new computational algorithm
    • Wu, Q., Wang, Y., Cao, M., Pantaleo, V., Burgyan, J., Li, W.X., Ding, S.W., Homology-independent discovery of replicating pathogenic circular RNAs by deep sequencing and a new computational algorithm. Proc. Natl. Acad. Sci. 109:10 (2012), 3938–3943.
    • (2012) Proc. Natl. Acad. Sci. , vol.109 , Issue.10 , pp. 3938-3943
    • Wu, Q.1    Wang, Y.2    Cao, M.3    Pantaleo, V.4    Burgyan, J.5    Li, W.X.6    Ding, S.W.7
  • 80
    • 84938693050 scopus 로고    scopus 로고
    • Identification of viruses and viroids by next-Generation sequencing and homology-dependent and homology-independent algorithms
    • (150605182533006)
    • Wu, Q., Ding, S.-W., Zhang, Y., Zhu, S., Identification of viruses and viroids by next-Generation sequencing and homology-dependent and homology-independent algorithms. Annu. Rev. Phytopathol., 53, 2014 (150605182533006).
    • (2014) Annu. Rev. Phytopathol. , vol.53
    • Wu, Q.1    Ding, S.-W.2    Zhang, Y.3    Zhu, S.4
  • 81
    • 79955877212 scopus 로고    scopus 로고
    • RAPSearch: a fast protein similarity search tool for short reads
    • Ye, Y., Choi, J.-H., Tang, H., RAPSearch: a fast protein similarity search tool for short reads. BMC Bioinf., 12(1), 2011, 159.
    • (2011) BMC Bioinf. , vol.12 , Issue.1 , pp. 159
    • Ye, Y.1    Choi, J.-H.2    Tang, H.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.