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Volumn 29, Issue 10, 2013, Pages 1361-1364

Nautilus: A bioinformatics package for the analysis of HIV type 1 targeted deep sequencing data

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BIOINFORMATICS; COMPUTER INTERFACE; DNA POLYMORPHISM; GENE MUTATION; GENETIC VARIABILITY; HAPLOTYPE; HUMAN IMMUNODEFICIENCY VIRUS 1; LINKAGE ANALYSIS; NAUTILUS TECHNOLOGY; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SEQUENCE ANALYSIS;

EID: 84885111954     PISSN: 08892229     EISSN: 19318405     Source Type: Journal    
DOI: 10.1089/aid.2013.0175     Document Type: Article
Times cited : (7)

References (12)
  • 1
    • 84872040237 scopus 로고    scopus 로고
    • Hiv pathogenesis: Dynamics and genetics of viral populations and infected cells
    • Coffin J and Swanstrom R: HIV pathogenesis: Dynamics and genetics of viral populations and infected cells. Cold Spring Harbor Perspect Med 2013;3:a012526.
    • (2013) Cold Spring Harbor Perspect Med , vol.3
    • Coffin, J.1    Swanstrom, R.2
  • 2
    • 0032710838 scopus 로고    scopus 로고
    • Consistent viral evolutionary changes associated with the progression of human immunodeficiency virus type 1 infection
    • Shankarappa R, Margolick JB, Gange SJ, et al.: Consistent viral evolutionary changes associated with the progression of human immunodeficiency virus type 1 infection. J Virol 1999;73:10489-10502.
    • (1999) J Virol , vol.73 , pp. 10489-10502
    • Shankarappa, R.1    Margolick, J.B.2    Gange, S.J.3
  • 3
    • 80051688000 scopus 로고    scopus 로고
    • Field guide to next-generation dna sequencers
    • Glenn TC: Field guide to next-generation DNA sequencers. Mol Ecol Resour 2011;11:759-769.
    • (2011) Mol Ecol Resour , vol.11 , pp. 759-769
    • Glenn, T.C.1
  • 4
    • 84874964797 scopus 로고    scopus 로고
    • Challenges and opportunities in estimating viral genetic diversity from next-generation sequencing data
    • Beerenwinkel N, Gunthard HF, Roth V, and Metzner KJ: Challenges and opportunities in estimating viral genetic diversity from next-generation sequencing data. Front Microbiol 2012;3:329.
    • (2012) Front Microbiol , vol.3 , pp. 329
    • Beerenwinkel, N.1    Gunthard, H.F.2    Roth, V.3    Metzner, K.J.4
  • 5
    • 84861214061 scopus 로고    scopus 로고
    • Whole genome deep sequencing of HIV-1 reveals the impact of early minor variants upon immune recognition during acute infection
    • Henn MR, Boutwell CL, Charlebois P, et al.: Whole genome deep sequencing of HIV-1 reveals the impact of early minor variants upon immune recognition during acute infection. PLoS Pathog 2012;8:e1002529.
    • (2012) PLoS Pathog , vol.8
    • Henn, M.R.1    Boutwell, C.L.2    Charlebois, P.3
  • 6
    • 77957901912 scopus 로고    scopus 로고
    • Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing
    • Fischer W, Ganusov VV, Giorgi EE, et al.: Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing. PLoS One 2010;5:e12303.
    • (2010) PLoS One , vol.5
    • Fischer, W.1    Ganusov, V.V.2    Giorgi, E.E.3
  • 7
    • 66249094578 scopus 로고    scopus 로고
    • Quantitative deep sequencing reveals dynamic HIV-1 escape and large population shifts during ccr5 antagonist therapy in vivo
    • Tsibris AM, Korber B, Arnaout R, et al.: Quantitative deep sequencing reveals dynamic HIV-1 escape and large population shifts during CCR5 antagonist therapy in vivo. PLoS One 2009;4:e5683.
    • (2009) PLoS One , vol.4
    • Tsibris, A.M.1    Korber, B.2    Arnaout, R.3
  • 8
    • 84885115696 scopus 로고    scopus 로고
    • Incident cases characterization and deep sequencing provide new insight into multiplicity of infection and hiv evolution in very early acute infection
    • Boston, MA, 2012
    • Kijak G, Sanders-Buell E, Rolland M, et al.: Incident cases characterization and deep sequencing provide new insight into multiplicity of infection and HIV evolution in very early acute infection. AIDS Vaccine 2012. Vol. P05.06. Boston, MA, 2012.
    • (2012) AIDS Vaccine
    • Kijak, G.1    Sanders-Buell, E.2    Rolland, M.3
  • 9
    • 84875002547 scopus 로고    scopus 로고
    • Analysis of 454 sequencing error rate, error sources, and artifact recombination for detection of low-frequency drug resistance mutations in HIV-1 dna
    • Shao W, Boltz VF, Spindler JE, et al.: Analysis of 454 sequencing error rate, error sources, and artifact recombination for detection of low-frequency drug resistance mutations in HIV-1 DNA. Retrovirology 2013;10:18.
    • (2013) Retrovirology , vol.10 , pp. 18
    • Shao, W.1    Boltz, V.F.2    Spindler, J.E.3
  • 10
    • 68549104404 scopus 로고    scopus 로고
    • The sequence alignment/ map format and samtools
    • Li H, Handsaker B, Wysoker A, et al.: The Sequence Alignment/ Map format and SAMtools. Bioinformatics 2009;5: 2078-2079.
    • (2009) Bioinformatics , vol.5 , pp. 2078-2079
    • Li, H.1    Handsaker, B.2    Wysoker, A.3
  • 11
    • 79959945229 scopus 로고    scopus 로고
    • Pilelinegui: A desktop environment for handling genome position files in next-generation sequencing studies
    • Lopez-Fernandez H, Glez-Pena D, Reboiro-Jato M, et al.: PileLineGUI: A desktop environment for handling genome position files in next-generation sequencing studies. Nucleic Acids Res 2011;39:W562-566.
    • (2011) Nucleic Acids Res , vol.39
    • Lopez-Fernandez, H.1    Glez-Pena, D.2    Reboiro-Jato, M.3
  • 12
    • 79959438245 scopus 로고    scopus 로고
    • Systematic exploration of error sources in pyrosequencing flowgram data
    • Balzer S, Malde K, and Jonassen I: Systematic exploration of error sources in pyrosequencing flowgram data. Bioinformatics 2011;27:i304-309.
    • (2011) Bioinformatics , vol.27
    • Balzer, S.1    Malde, K.2    Jonassen, I.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.