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Volumn 5, Issue 1, 2010, Pages 39-49

From experimental setup to bioinformatics: An RNAi screening platform to identify host factors involved in HIV-1 replication

Author keywords

High throughput screening; HIV; RNA interference; Small interfering RNA

Indexed keywords

CELL IMAGES; CELLULAR GENES; CELLULAR NETWORK; DOWN-REGULATION; EXPERIMENTAL SETUP; GENE FUNCTION; HEIDELBERG; HIGH-THROUGHPUT; HIGH-THROUGHPUT SCREENING; HUMAN IMMUNODEFICIENCY VIRUS-1; INTEGRAL PART; METABOLIC PATHWAYS; PRIMARY SCREEN; RNA INTERFERENCE; SCREENING APPROACHES; SMALL INTERFERING RNA; STATISTICAL ANALYSIS; SYSTEMS BIOLOGY; TRUE POSITIVE; TWO STAGE; VIRAL REPLICATION;

EID: 75649137690     PISSN: 18606768     EISSN: 18607314     Source Type: Journal    
DOI: 10.1002/biot.200900226     Document Type: Article
Times cited : (39)

References (34)
  • 1
    • 53849093455 scopus 로고    scopus 로고
    • Cell biology of HIV-1 infection of macrophages
    • Carter, C. A., Ehrlich, L. S., Cell biology of HIV-1 infection of macrophages. Annu. Rev. Microbiol. 2008, 62, 425-443.
    • (2008) Annu. Rev. Microbiol , vol.62 , pp. 425-443
    • Carter, C.A.1    Ehrlich, L.S.2
  • 2
    • 44649139364 scopus 로고    scopus 로고
    • HIV-1 accessory proteins - Ensuring viral survival in a hostile environment
    • Malim, M. H., Emerman, M., HIV-1 accessory proteins - Ensuring viral survival in a hostile environment. Cell Host Microbe 2008, 3, 388-398.
    • (2008) Cell Host Microbe , vol.3 , pp. 388-398
    • Malim, M.H.1    Emerman, M.2
  • 3
    • 65549143688 scopus 로고    scopus 로고
    • Cell-to-cell HIV-1 spread and its implications for immune evasion
    • Martin, N., Sattentau, Q., Cell-to-cell HIV-1 spread and its implications for immune evasion. Curr. Opin. HIV AIDS 2009, 4, 143-149.
    • (2009) Curr. Opin. HIV AIDS , vol.4 , pp. 143-149
    • Martin, N.1    Sattentau, Q.2
  • 4
    • 39349097864 scopus 로고    scopus 로고
    • Identification of host proteins required for HIV infection through a functional genomic screen
    • Brass, A. L., Dykxhoorn, D. M., Benita, Y., Yan, N. et al., Identification of host proteins required for HIV infection through a functional genomic screen. Science 2008, 319, 921-926.
    • (2008) Science , vol.319 , pp. 921-926
    • Brass, A.L.1    Dykxhoorn, D.M.2    Benita, Y.3    Yan, N.4
  • 5
    • 52949130695 scopus 로고    scopus 로고
    • Global analysis of host-pathogen interactions that regulate earlystage HIV-1 replication
    • Konig, R., Zhou, Y., Elleder, D., Diamond, T. L. et al., Global analysis of host-pathogen interactions that regulate earlystage HIV-1 replication. Cell 2008, 135, 49-60.
    • (2008) Cell , vol.135 , pp. 49-60
    • Konig, R.1    Zhou, Y.2    Elleder, D.3    Diamond, T.L.4
  • 6
    • 55249088255 scopus 로고    scopus 로고
    • Genome-scale RNAi screen for host factors required for HIV replication
    • Zhou, H., Xu, M., Huang, Q., Gates, A.T. et al., Genome-scale RNAi screen for host factors required for HIV replication. Cell Host Microbe 2008, 4, 495-504.
    • (2008) Cell Host Microbe , vol.4 , pp. 495-504
    • Zhou, H.1    Xu, M.2    Huang, Q.3    Gates, A.T.4
  • 7
    • 67249143012 scopus 로고    scopus 로고
    • Bushman, F. D., Malani, N., Fernandes, J., D'Orso, I. et al., Host cell factors in HIV replication: meta-analysis of genome-wide studies. PLoS Pathog. 2009, 5, e1000437.
    • Bushman, F. D., Malani, N., Fernandes, J., D'Orso, I. et al., Host cell factors in HIV replication: meta-analysis of genome-wide studies. PLoS Pathog. 2009, 5, e1000437.
  • 8
    • 54549091050 scopus 로고    scopus 로고
    • Knockdown screens to knockout HIV-1
    • Goff, S.P., Knockdown screens to knockout HIV-1. Cell 2008, 135, 417-420.
    • (2008) Cell , vol.135 , pp. 417-420
    • Goff, S.P.1
  • 9
    • 68049093863 scopus 로고    scopus 로고
    • Illuminating the host - How RNAi screens shed light on host-pathogen interactions
    • Prudencio, M., Lehmann, M. J., Illuminating the host - How RNAi screens shed light on host-pathogen interactions. Biotechnol. J. 2009, 4, 826-837.
    • (2009) Biotechnol. J , vol.4 , pp. 826-837
    • Prudencio, M.1    Lehmann, M.J.2
  • 10
    • 34347220153 scopus 로고    scopus 로고
    • Reverse transfection on cell arrays for high content screening microscopy
    • Erfle, H., Neumann, B., Liebel, U., Rogers, P. et al., Reverse transfection on cell arrays for high content screening microscopy. Nat. Protoc. 2007, 2, 392-399.
    • (2007) Nat. Protoc , vol.2 , pp. 392-399
    • Erfle, H.1    Neumann, B.2    Liebel, U.3    Rogers, P.4
  • 11
    • 49249126411 scopus 로고    scopus 로고
    • Work flow for multiplexing siRNA assays by solid-phase reverse transfection in multiwell plates
    • Erfle, H., Neumann, B., Rogers, P., Bulkescher, J. et al., Work flow for multiplexing siRNA assays by solid-phase reverse transfection in multiwell plates. J. Biomol. Screen. 2008, 13, 575-580.
    • (2008) J. Biomol. Screen , vol.13 , pp. 575-580
    • Erfle, H.1    Neumann, B.2    Rogers, P.3    Bulkescher, J.4
  • 13
    • 0031716336 scopus 로고    scopus 로고
    • Virion incorporation of human immunodeficiency virus type 1 Nef is mediated by a bipartite membrane-targeting signal: Analysis of its role in enhancement of viral infectivity
    • Welker, R., Harris, M., Cardel, B., Krausslich, H.G., Virion incorporation of human immunodeficiency virus type 1 Nef is mediated by a bipartite membrane-targeting signal: Analysis of its role in enhancement of viral infectivity. J. Virol. 1998, 72, 8833-8840.
    • (1998) J. Virol , vol.72 , pp. 8833-8840
    • Welker, R.1    Harris, M.2    Cardel, B.3    Krausslich, H.G.4
  • 15
    • 0018306059 scopus 로고
    • A threshold selection method from grey level histograms
    • Otsu, N., A threshold selection method from grey level histograms. IEEE Trans. Systems Man Cybernetics 1979, 9, 62-66.
    • (1979) IEEE Trans. Systems Man Cybernetics , vol.9 , pp. 62-66
    • Otsu, N.1
  • 16
    • 0011384911 scopus 로고    scopus 로고
    • A comparison of methods for estimation of intensity nonuniformities in 2D and 3D microscope images of fluorescence stained cells
    • Lindblad, J., Bengtsson, E., A comparison of methods for estimation of intensity nonuniformities in 2D and 3D microscope images of fluorescence stained cells. Proceedings of the 12th Scandinavian Conference on Image Analysis (SCIA) 2001, 264-271.
    • (2001) Proceedings of the 12th Scandinavian Conference on Image Analysis (SCIA) , pp. 264-271
    • Lindblad, J.1    Bengtsson, E.2
  • 17
    • 84936916896 scopus 로고
    • Robust locally weighted regression and smoothing scatterplots
    • Cleveland, W. S., Robust locally weighted regression and smoothing scatterplots. J. Am. Stat. Assoc. 1979, 829-836.
    • (1979) J. Am. Stat. Assoc , pp. 829-836
    • Cleveland, W.S.1
  • 18
    • 3242669872 scopus 로고    scopus 로고
    • Improved statistical methods for hit selection in high-throughput screening
    • Brideau, C., Gunter, B., Pikounis, B., Liaw, A., Improved statistical methods for hit selection in high-throughput screening. J. Biomol. Screen. 2003, 8, 634-647.
    • (2003) J. Biomol. Screen , vol.8 , pp. 634-647
    • Brideau, C.1    Gunter, B.2    Pikounis, B.3    Liaw, A.4
  • 19
  • 21
    • 61449164033 scopus 로고    scopus 로고
    • RNAither, an automated pipeline for the statistical analysis of highthroughput RNAi screens
    • Rieber, N., Knapp, B., Eils, R., Kaderali, L., RNAither, an automated pipeline for the statistical analysis of highthroughput RNAi screens. Bioinformatics 2009, 25, 678-679.
    • (2009) Bioinformatics , vol.25 , pp. 678-679
    • Rieber, N.1    Knapp, B.2    Eils, R.3    Kaderali, L.4
  • 23
    • 33846057724 scopus 로고    scopus 로고
    • A curated non-redundant sequence database of genomes, transcripts and proteins
    • NCBI reference sequences RefSeq
    • Pruitt, K. D., Tatusova, T., Maglott, D. R., NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res. 2007, 35, D61-65.
    • (2007) Nucleic Acids Res , vol.35
    • Pruitt, K.D.1    Tatusova, T.2    Maglott, D.R.3
  • 26
    • 38549097071 scopus 로고    scopus 로고
    • The universal protein resource (UniProt)
    • The universal protein resource (UniProt). Nucleic Acids Res. 2008, 36, D190-195.
    • (2008) Nucleic Acids Res , vol.36
  • 27
    • 0033982936 scopus 로고    scopus 로고
    • Kyoto encyclopedia of genes and genomes
    • KEGG
    • Kanehisa, M., Goto, S., KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 2000, 28, 27-30.
    • (2000) Nucleic Acids Res , vol.28 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 28
    • 33745626459 scopus 로고    scopus 로고
    • Improved scoring of functional groups from gene expression data by decorrelating GO graph structure
    • Alexa, A., Rahnenfuhrer, J., Lengauer, T., Improved scoring of functional groups from gene expression data by decorrelating GO graph structure. Bioinformatics 2006, 22, 1600-1607.
    • (2006) Bioinformatics , vol.22 , pp. 1600-1607
    • Alexa, A.1    Rahnenfuhrer, J.2    Lengauer, T.3
  • 29
    • 0141742293 scopus 로고    scopus 로고
    • A library of protein families and subfamilies indexed by function
    • PANTHER
    • Thomas, P. D., Campbell, M. J., Kejariwal, A., Mi, H. et al., PANTHER:A library of protein families and subfamilies indexed by function. Genome Res. 2003, 13, 2129-2141.
    • (2003) Genome Res , vol.13 , pp. 2129-2141
    • Thomas, P.D.1    Campbell, M.J.2    Kejariwal, A.3    Mi, H.4
  • 30
    • 33947419351 scopus 로고    scopus 로고
    • An evaluation of human protein-protein interaction data in the public domain
    • Mathivanan, S., Periaswamy, B., Gandhi, T. K., Kandasamy, K. et al., An evaluation of human protein-protein interaction data in the public domain. BMC Bioinformatics 2006, 7 Suppl 5, S19.
    • (2006) BMC Bioinformatics , vol.7 , Issue.SUPPL. 5
    • Mathivanan, S.1    Periaswamy, B.2    Gandhi, T.K.3    Kandasamy, K.4
  • 32
    • 58149193234 scopus 로고    scopus 로고
    • STRING 8 - A global view on proteins and their functional interactions in 630 organisms
    • Jensen, L. J., Kuhn, M., Stark, M., Chaffron, S. et al., STRING 8 - A global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res. 2009, 37, D412-416.
    • (2009) Nucleic Acids Res , vol.37
    • Jensen, L.J.1    Kuhn, M.2    Stark, M.3    Chaffron, S.4
  • 33
    • 0242490780 scopus 로고    scopus 로고
    • Cytoscape: A software environment for integrated models of biomolecular interaction networks
    • Shannon, P., Markiel, A., Ozier, O., Baliga, N. S. et al., Cytoscape: A software environment for integrated models of biomolecular interaction networks. Genome Res. 2003, 13, 2498-2504.
    • (2003) Genome Res , vol.13 , pp. 2498-2504
    • Shannon, P.1    Markiel, A.2    Ozier, O.3    Baliga, N.S.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.