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Volumn 9, Issue 2, 2014, Pages

RNA CoMPASS: A dual approach for pathogen and host

Author keywords

[No Author keywords available]

Indexed keywords

IMMUNOGLOBULIN ENHANCER BINDING PROTEIN; MYC PROTEIN; TRANSCRIPTOME; INTERFERON; RNA;

EID: 84896090972     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0089445     Document Type: Article
Times cited : (34)

References (35)
  • 1
    • 39749113080 scopus 로고    scopus 로고
    • Clonal integration of a polyomavirus in human Merkel cell carcinoma
    • DOI 10.1126/science.1152586
    • Feng H, Shuda M, Chang Y, Moore PS (2008) Clonal Integration of a Polyomavirus in Human Merkel Cell Carcinoma. Science 319: 1096-1100. (Pubitemid 351300792)
    • (2008) Science , vol.319 , Issue.5866 , pp. 1096-1100
    • Feng, H.1    Shuda, M.2    Chang, Y.3    Moore, P.S.4
  • 2
    • 79955778143 scopus 로고    scopus 로고
    • PathSeq: Software to identify or discover microbes by deep sequencing of human tissue
    • Kostic AD, Ojesina AI, Pedamallu CS, Jung J, Verhaak RGW, et al. (2011) PathSeq: software to identify or discover microbes by deep sequencing of human tissue. Nat Biotech 29: 393-396.
    • (2011) Nat Biotech , vol.29 , pp. 393-396
    • Kostic, A.D.1    Ojesina, A.I.2    Pedamallu, C.S.3    Jung, J.4    Verhaak, R.G.W.5
  • 5
    • 0036479008 scopus 로고    scopus 로고
    • Identification of foreign gene sequences by transcript filtering against the human genome
    • Weber G, Shendure J, Tanenbaum DM, Church GM, Meyerson M (2002) Identification of foreign gene sequences by transcript filtering against the human genome. Nat Genet 30: 141-142.
    • (2002) Nat Genet , vol.30 , pp. 141-142
    • Weber, G.1    Shendure, J.2    Tanenbaum, D.M.3    Church, G.M.4    Meyerson, M.5
  • 6
    • 79955930966 scopus 로고    scopus 로고
    • The Sensitivity of Massively Parallel Sequencing for Detecting Candidate Infectious Agents Associated with Human Tissue
    • Moore RA, Warren R, Freeman JD, Gustavsen JA, Chenard C, et al. (2011) The Sensitivity of Massively Parallel Sequencing for Detecting Candidate Infectious Agents Associated with Human Tissue. PLoS ONE 6: e19838.
    • (2011) PLoS ONE , vol.6
    • Moore, R.A.1    Warren, R.2    Freeman, J.D.3    Gustavsen, J.A.4    Chenard, C.5
  • 8
    • 35148898713 scopus 로고    scopus 로고
    • Human transcriptome subtraction by using short sequence tags to search for tumor viruses in conjunctival carcinoma
    • DOI 10.1128/JVI.00875-07
    • Feng H, Taylor JL, Benos PV, Newton R, Waddell K, et al. (2007) Human Transcriptome Subtraction by Using Short Sequence Tags To Search for Tumor Viruses in Conjunctival Carcinoma. Journal of Virology 81: 11332-11340. (Pubitemid 47536104)
    • (2007) Journal of Virology , vol.81 , Issue.20 , pp. 11332-11340
    • Feng, H.1    Taylor, J.L.2    Benos, P.V.3    Newton, R.4    Waddell, K.5    Lucas, S.B.6    Chang, Y.7    Moore, P.S.8
  • 10
    • 84863159498 scopus 로고    scopus 로고
    • Identification of New Viral Genes and Transcript Isoforms during Epstein-Barr Virus Reactivation using RNA-Seq
    • Concha M, Wang X, Cao S, Baddoo M, Fewell C, et al. (2012) Identification of New Viral Genes and Transcript Isoforms during Epstein-Barr Virus Reactivation using RNA-Seq. Journal of Virology 86: 1458-1467.
    • (2012) Journal of Virology , vol.86 , pp. 1458-1467
    • Concha, M.1    Wang, X.2    Cao, S.3    Baddoo, M.4    Fewell, C.5
  • 11
    • 60849117520 scopus 로고    scopus 로고
    • Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks
    • Nix D, Courdy S, Boucher K (2008) Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks. BMC Bioinformatics 9: 523.
    • (2008) BMC Bioinformatics , vol.9 , pp. 523
    • Nix, D.1    Courdy, S.2    Boucher, K.3
  • 13
    • 84859436530 scopus 로고    scopus 로고
    • NCBI Reference Sequences (RefSeq): Current status, new features and genome annotation policy
    • Pruitt KD, Tatusova T, Brown GR, Maglott DR (2012) NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy. Nucleic Acids Research 40: D130-D135.
    • (2012) Nucleic Acids Research , vol.40
    • Pruitt, K.D.1    Tatusova, T.2    Brown, G.R.3    Maglott, D.R.4
  • 15
    • 75249087100 scopus 로고    scopus 로고
    • edgeR: A Bioconductor package for differential expression analysis of digital gene expression data
    • Robinson MD, McCarthy DJ, Smyth GK (2010) edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26: 139-140.
    • (2010) Bioinformatics , vol.26 , pp. 139-140
    • Robinson, M.D.1    McCarthy, D.J.2    Smyth, G.K.3
  • 16
    • 65449136284 scopus 로고    scopus 로고
    • TopHat: Discovering splice junctions with RNA-Seq
    • Trapnell C, Pachter L, Salzberg SL (2009) TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25: 1105-1111.
    • (2009) Bioinformatics , vol.25 , pp. 1105-1111
    • Trapnell, C.1    Pachter, L.2    Salzberg, S.L.3
  • 22
    • 84878510017 scopus 로고    scopus 로고
    • Differences in Gastric Carcinoma Microenvironment Stratify According to EBV Infection Intensity: Implications for Possible Immune Adjuvant Therapy
    • Strong MJ, Xu G, Coco J, Baribault C, Vinay DS, et al. (2013) Differences in Gastric Carcinoma Microenvironment Stratify According to EBV Infection Intensity: Implications for Possible Immune Adjuvant Therapy. PLoS Pathog 9: e1003341.
    • (2013) PLoS Pathog , vol.9
    • Strong, M.J.1    Xu, G.2    Coco, J.3    Baribault, C.4    Vinay, D.S.5
  • 27
    • 65349124094 scopus 로고    scopus 로고
    • c-Myc and Rel/NF-kB Are the Two Master Transcriptional Systems Activated in the Latency III Program of Epstein-Barr Virus-Immortalized B Cells
    • Faumont N, Durand-Panteix S, Schlee M, Gromminger S, Schuhmacher M, et al. (2009) c-Myc and Rel/NF-kB Are the Two Master Transcriptional Systems Activated in the Latency III Program of Epstein-Barr Virus-Immortalized B Cells. Journal of Virology 83: 5014-5027.
    • (2009) Journal of Virology , vol.83 , pp. 5014-5027
    • Faumont, N.1    Durand-Panteix, S.2    Schlee, M.3    Gromminger, S.4    Schuhmacher, M.5
  • 28
    • 23144464363 scopus 로고    scopus 로고
    • Transcriptional regulation and transformation by Myc proteins
    • DOI 10.1038/nrm1703
    • Adhikary S, Eilers M (2005) Transcriptional regulation and transformation by Myc proteins. Nature Reviews Molecular Cell Biology 6: 635-645. (Pubitemid 41081267)
    • (2005) Nature Reviews Molecular Cell Biology , vol.6 , Issue.8 , pp. 635-645
    • Adhikary, S.1    Eilers, M.2
  • 29
    • 0028853402 scopus 로고
    • The Epstein-Barr virus latent membrane protein-1 (LMP1) mediates activation of NF-kappa B and cell surface phenotype via two effector regions in its carboxy-terminal cytoplasmic domain
    • Huen D, Henderson S, Croom-Carter D, Rowe M (1995) The Epstein-Barr virus latent membrane protein-1 (LMP1) mediates activation of NF-kappa B and cell surface phenotype via two effector regions in its carboxy-terminal cytoplasmic domain. Oncogene 10: 549-560.
    • (1995) Oncogene , vol.10 , pp. 549-560
    • Huen, D.1    Henderson, S.2    Croom-Carter, D.3    Rowe, M.4
  • 30
    • 1842484160 scopus 로고    scopus 로고
    • Role of NF-kB in Cell Survival and Transcription of Latent Membrane Protein 1-Expressing or Epstein-Barr Virus Latency III-Infected Cells
    • DOI 10.1128/JVI.78.8.4108-4119.2004
    • Cahir-McFarland ED, Carter K, Rosenwald A, Giltnane JM, Henrickson SE, et al. (2004) Role of NF-kB in Cell Survival and Transcription of Latent Membrane Protein 1-Expressing or Epstein-Barr Virus Latency III-Infected Cells. Journal of Virology 78: 4108-4119. (Pubitemid 38437217)
    • (2004) Journal of Virology , vol.78 , Issue.8 , pp. 4108-4119
    • Cahir-McFarland, E.D.1    Carter, K.2    Rosenwald, A.3    Giltnane, J.M.4    Henrickson, S.E.5    Staudt, L.M.6    Kieff, E.7
  • 31
    • 34047270885 scopus 로고    scopus 로고
    • c-MYC Impairs Immunogenicity of Human B Cells
    • F. V. W George and K George, editors. Academic Press
    • Schlee M, Schuhmacher M, Holzel M, Laux G, Bornkamm GW (2007) c-MYC Impairs Immunogenicity of Human B Cells. In: F. V. W George and K George, editors. Advances in Cancer Research. Academic Press. pp. 167-188.
    • (2007) Advances in Cancer Research , pp. 167-188
    • Schlee, M.1    Schuhmacher, M.2    Holzel, M.3    Laux, G.4    Bornkamm, G.W.5
  • 32
    • 84867051939 scopus 로고    scopus 로고
    • Burkitt lymphoma pathogenesis and therapeutic targets from structural and functional genomics
    • Schmitz R, Young RM, Ceribelli M, Jhavar S, Xiao W, et al. (2012) Burkitt lymphoma pathogenesis and therapeutic targets from structural and functional genomics. Nature 490: 116-120.
    • (2012) Nature , vol.490 , pp. 116-120
    • Schmitz, R.1    Young, R.M.2    Ceribelli, M.3    Jhavar, S.4    Xiao, W.5
  • 34
    • 0025363033 scopus 로고
    • Prognostic significance of actual dose intensity in diffuse large-cell lymphoma: Results of a tree-structured survival analysis
    • Kwak LW, Halpern J, Olshen RA, Horning SJ (1990) Prognostic significance of actual dose intensity in diffuse large-cell lymphoma: results of a tree-structured survival analysis. Journal of Clinical Oncology 8: 963-977. (Pubitemid 20200184)
    • (1990) Journal of Clinical Oncology , vol.8 , Issue.6 , pp. 963-977
    • Kwak, L.W.1    Halpern, J.2    Olshen, R.A.3    Horning, S.J.4
  • 35
    • 77952242297 scopus 로고    scopus 로고
    • High dose intensity doxorubicin in aggressive non-Hodgkin's lymphoma: A literature-based meta-analysis
    • Azim HA, Santoro L, Bociek RG, Gandini S, Malek RA (2010) High dose intensity doxorubicin in aggressive non-Hodgkin's lymphoma: a literature-based meta-analysis. Annals of Oncology 21: 1064-1071.
    • (2010) Annals of Oncology , vol.21 , pp. 1064-1071
    • Azim, H.A.1    Santoro, L.2    Bociek, R.G.3    Gandini, S.4    Malek, R.A.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.