메뉴 건너뛰기




Volumn 26, Issue 18, 2010, Pages

Semi-supervised multi-task learning for predicting interactions between HIV-1 and human proteins

Author keywords

[No Author keywords available]

Indexed keywords

HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 77956497661     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btq394     Document Type: Article
Times cited : (115)

References (37)
  • 1
    • 24744435534 scopus 로고    scopus 로고
    • Kernel methods for predicting protein-protein interactions
    • Ben-Hur,A. and Noble,W. (2005) Kernel methods for predicting protein-protein interactions. Bioinformatics, 21, i38-i46.
    • (2005) Bioinformatics , vol.21
    • Ben-Hur, A.1    Noble, W.2
  • 2
    • 39349097864 scopus 로고    scopus 로고
    • Identification of host proteins required for hiv infection through a functional genomic screen
    • Brass,A.L. et al. (2008) Identification of host proteins required for hiv infection through a functional genomic screen. Science, 319, 921-926.
    • (2008) Science , vol.319 , pp. 921-926
    • Brass, A.L.1
  • 3
    • 0035478854 scopus 로고    scopus 로고
    • Random forests
    • article
    • Breiman,L. (2001) Random forests. Mach. Learn., 45, 5-32. article.
    • (2001) Mach. Learn. , vol.45 , pp. 5-32
    • Breiman, L.1
  • 4
    • 0031189914 scopus 로고    scopus 로고
    • Multitask learning
    • Caruana,R. (1997) Multitask learning. Mach. Learn., 28, 41-75.
    • (1997) Mach. Learn. , vol.28 , pp. 41-75
    • Caruana, R.1
  • 5
    • 33749252873 scopus 로고    scopus 로고
    • Chapelle,O. et al. eds. (Adaptive Computation and Machine Learning). MIT Press, MA, USA
    • Chapelle,O. et al. eds (2006) Semi-Supervised Learning (Adaptive Computation and Machine Learning). MIT Press, MA, USA.
    • (2006) Semi-Supervised Learning
  • 6
    • 58149213932 scopus 로고    scopus 로고
    • Literature-curated protein interaction datasets
    • Cusick,M.E. et al. (2008) Literature-curated protein interaction datasets. Nat. Methods, 6, 39-46.
    • (2008) Nat. Methods , vol.6 , pp. 39-46
    • Cusick, M.E.1
  • 7
    • 36448963759 scopus 로고    scopus 로고
    • Host pathogen protein interactions predicted by comparative modeling
    • Davis,F.P. et al. (2007) Host pathogen protein interactions predicted by comparative modeling. Protein Sci., 16, 2585-2596.
    • (2007) Protein Sci. , vol.16 , pp. 2585-2596
    • Davis, F.P.1
  • 8
    • 67949109561 scopus 로고    scopus 로고
    • Prediction of HIV-1 virus-host protein interactions using virus and host sequence motifs
    • Evans,P. et al. (2009) Prediction of HIV-1 virus-host protein interactions using virus and host sequence motifs. BMC Med. Genomics, 2, 27.
    • (2009) BMC Med. Genomics , vol.2 , pp. 27
    • Evans, P.1
  • 9
    • 58149200940 scopus 로고    scopus 로고
    • Human immunodeficiency virus type 1, human protein interaction database at NCBI
    • Fu,W. et al. (2008) Human immunodeficiency virus type 1, human protein interaction database at NCBI. Nucleic Acids Res., 37, D417-D422.
    • (2008) Nucleic Acids Res. , vol.37
    • Fu, W.1
  • 10
    • 0037050026 scopus 로고    scopus 로고
    • Functional organization of the yeast proteome by systematic analysis of protein complexes
    • Gavin,A.-C. et al. (2002) Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature, 415, 141-147.
    • (2002) Nature , vol.415 , pp. 141-147
    • Gavin, A.-C.1
  • 11
    • 33644555054 scopus 로고    scopus 로고
    • Proteome survey reveals modularity of the yeast cell machinery
    • Gavin,A. et al. (2006) Proteome survey reveals modularity of the yeast cell machinery. Nature, 440, 631-636.
    • (2006) Nature , vol.440 , pp. 631-636
    • Gavin, A.1
  • 12
    • 0037050004 scopus 로고    scopus 로고
    • Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry
    • Ho,Y. et al. (2002) Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature, 415, 180-183.
    • (2002) Nature , vol.415 , pp. 180-183
    • Ho, Y.1
  • 13
    • 0035836765 scopus 로고    scopus 로고
    • A comprehensive two-hybrid analysis to explore the yeast proteininteractome
    • Ito,T. et al. (2001) A comprehensive two-hybrid analysis to explore the yeast proteininteractome. Proc. Natl Acad. Sci. USA, 98, 4569-4574.
    • (2001) Proc. Natl Acad. Sci. USA , vol.98 , pp. 4569-4574
    • Ito, T.1
  • 14
    • 0142052944 scopus 로고    scopus 로고
    • A bayesian networks approach for predicting protein-protein interactions from genomic data
    • Jansen,R. et al. (2003) A bayesian networks approach for predicting protein-protein interactions from genomic data. Science, 302, 449-453.
    • (2003) Science , vol.302 , pp. 449-453
    • Jansen, R.1
  • 15
    • 52949130695 scopus 로고    scopus 로고
    • Global analysis of host-pathogen interactions that regulate early-stage hiv-1 replication
    • König,R. et al. (2008) Global analysis of host-pathogen interactions that regulate early-stage hiv-1 replication. Cell, 135, 49-60.
    • (2008) Cell , vol.135 , pp. 49-60
    • König, R.1
  • 16
    • 9444239213 scopus 로고    scopus 로고
    • A probabilistic functional network of yeast genes
    • Lee,I. et al. (2004) A probabilistic functional network of yeast genes. Science, 306, 1555-1558.
    • (2004) Science , vol.306 , pp. 1555-1558
    • Lee, I.1
  • 17
    • 13244265581 scopus 로고    scopus 로고
    • Information assessment on predicting protein-protein interactions
    • Lin,N. et al. (2004) Information assessment on predicting protein-protein interactions. BMC Bioinformatics, 5, 154.
    • (2004) BMC Bioinformatics , vol.5 , pp. 154
    • Lin, N.1
  • 18
    • 43749122571 scopus 로고    scopus 로고
    • Cellular proteins detected in hiv-1
    • Ott,D.E. (2008) Cellular proteins detected in hiv-1. Rev. Med. Virol., 18, 159-175.
    • (2008) Rev. Med. Virol. , vol.18 , pp. 159-175
    • Ott, D.E.1
  • 19
    • 15944418607 scopus 로고    scopus 로고
    • Random forest similarity for protein-protein interaction prediction from multiple sources
    • Qi,Y. et al. (2005) Random forest similarity for protein-protein interaction prediction from multiple sources. Proc. Pac. Symp. Biocomput., 10, 531-542.
    • (2005) Proc. Pac. Symp. Biocomput. , vol.10 , pp. 531-542
    • Qi, Y.1
  • 20
    • 23444452564 scopus 로고    scopus 로고
    • Probabilistic model of the human protein-protein interaction network
    • Rhodes,D.R. et al. (2005) Probabilistic model of the human protein-protein interaction network. Nat. Biotechnol., 8, 951-959.
    • (2005) Nat. Biotechnol. , vol.8 , pp. 951-959
    • Rhodes, D.R.1
  • 21
    • 27144530248 scopus 로고    scopus 로고
    • Towards a proteome-scale map of the human protein-protein interaction network
    • Rual,J.F. et al. (2005) Towards a proteome-scale map of the human protein-protein interaction network. Nature, 437, 1173-1178.
    • (2005) Nature , vol.437 , pp. 1173-1178
    • Rual, J.F.1
  • 22
    • 34547693013 scopus 로고    scopus 로고
    • Probabilistic prediction and ranking of human protein-protein interactions
    • Scott,M.S. and Barton,G.J. (2007) Probabilistic prediction and ranking of human protein-protein interactions. BMC Bioinformatics, 8, 239.
    • (2007) BMC Bioinformatics , vol.8 , pp. 239
    • Scott, M.S.1    Barton, G.J.2
  • 23
    • 34047202181 scopus 로고    scopus 로고
    • Deciphering protein-protein interactions. part i. experimental techniques and databases
    • Shoemaker,B.A. and Panchenko,A.R. (2007a) Deciphering protein-protein interactions. part i. experimental techniques and databases. PLoS Comput. Biol., 3, e42.
    • (2007) PLoS Comput. Biol. , vol.3
    • Shoemaker, B.A.1    Panchenko, A.R.2
  • 24
    • 34247586171 scopus 로고    scopus 로고
    • Deciphering protein-protein interactions. part ii. computational methods to predict protein and domain interaction partners
    • Shoemaker,B.A. and Panchenko,A.R. (2007b) Deciphering protein-protein interactions. part ii. computational methods to predict protein and domain interaction partners. PLoS Comput. Biol., 3, e43.
    • (2007) PLoS Comput. Biol. , vol.3
    • Shoemaker, B.A.1    Panchenko, A.R.2
  • 25
    • 25144498379 scopus 로고    scopus 로고
    • A human protein-protein interaction network: a resource for annotating the proteome
    • Stelzl,U. et al. (2005) A human protein-protein interaction network: a resource for annotating the proteome. Cell, 122, 830-832.
    • (2005) Cell , vol.122 , pp. 830-832
    • Stelzl, U.1
  • 26
    • 61949241412 scopus 로고    scopus 로고
    • Prediction of interactions between HIV-1 and human proteins by information integration
    • Tastan,O. et al. (2009) Prediction of interactions between HIV-1 and human proteins by information integration. Pac. Symp. Biocomput., 14, 516-527.
    • (2009) Pac. Symp. Biocomput. , vol.14 , pp. 516-527
    • Tastan, O.1
  • 27
    • 4143098020 scopus 로고    scopus 로고
    • HIV-host interactions: vital to the virus and key to its inhibition
    • Trkola,A. (2004) HIV-host interactions: vital to the virus and key to its inhibition. Curr. Opin. Microbiol., 7, 555-559.
    • (2004) Curr. Opin. Microbiol. , vol.7 , pp. 555-559
    • Trkola, A.1
  • 28
    • 0034628508 scopus 로고    scopus 로고
    • A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
    • Uetz,P. et al. (2000) A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature, 403, 623-627.
    • (2000) Nature , vol.403 , pp. 623-627
    • Uetz, P.1
  • 29
    • 0037161731 scopus 로고    scopus 로고
    • Comparative assessment of large-scale data sets of protein-protein interactions
    • von Mering,C. et al. (2002) Comparative assessment of large-scale data sets of protein-protein interactions. Nature, 417, 399-403.
    • (2002) Nature , vol.417 , pp. 399-403
    • von Mering, C.1
  • 30
    • 41849115573 scopus 로고    scopus 로고
    • InSite: a computational method for identifying protein-protein interaction binding sites on a proteome-wide scale
    • Wang,H. et al. (2007) InSite: a computational method for identifying protein-protein interaction binding sites on a proteome-wide scale. Genome Biol., 8, R192.1-R192.18.
    • (2007) Genome Biol. , vol.8
    • Wang, H.1
  • 32
    • 19544389868 scopus 로고    scopus 로고
    • Protein network inference from multiple genomic data: a supervised approach
    • Yamanishi,Y. et al. (2004) Protein network inference from multiple genomic data: a supervised approach. Bioinformatics, 20, 363-370.
    • (2004) Bioinformatics , vol.20 , pp. 363-370
    • Yamanishi, Y.1
  • 33
    • 67749148923 scopus 로고    scopus 로고
    • A genome-wide short hairpin rna screening of jurkat T-cells for human proteins contributing to productive HIV-1 replication
    • Yeung,M.L. et al. (2009) A genome-wide short hairpin rna screening of jurkat T-cells for human proteins contributing to productive HIV-1 replication. J. Biol. Chem., 284, 19463-19473.
    • (2009) J. Biol. Chem. , vol.284 , pp. 19463-19473
    • Yeung, M.L.1
  • 34
    • 58349093930 scopus 로고    scopus 로고
    • Training set expansion: an approach to improving the reconstruction of biological networks from limited and uneven reliable interactions
    • Yip,K.Y. and Gerstein,M. (2009) Training set expansion: an approach to improving the reconstruction of biological networks from limited and uneven reliable interactions. Bioinformatics, 25, 243-250.
    • (2009) Bioinformatics , vol.25 , pp. 243-250
    • Yip, K.Y.1    Gerstein, M.2
  • 35
    • 53349117774 scopus 로고    scopus 로고
    • High-quality binary protein interaction map of the yeast interactome network
    • Yu,H. et al. (2008) High-quality binary protein interaction map of the yeast interactome network. Science, 322, 104-110.
    • (2008) Science , vol.322 , pp. 104-110
    • Yu, H.1
  • 36
    • 2942541277 scopus 로고    scopus 로고
    • Predicting co-complexed protein pairs using genomic and proteomic data integration
    • Zhang,L. et al. (2004) Predicting co-complexed protein pairs using genomic and proteomic data integration. BMC Bioinformatics, 5, 38.
    • (2004) BMC Bioinformatics , vol.5 , pp. 38
    • Zhang, L.1
  • 37
    • 55249088255 scopus 로고    scopus 로고
    • Genome-scale rnai screen for host factors required for hiv replication
    • Zhou,H. et al. (2008) Genome-scale rnai screen for host factors required for hiv replication. Cell Host Microbe, 4, 495-504.
    • (2008) Cell Host Microbe , vol.4 , pp. 495-504
    • Zhou, H.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.