-
1
-
-
24744435534
-
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
-
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
-
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
-
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
-
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
31
-
-
56449119888
-
Deep learning via semi-supervised embedding
-
ACM, New York, NY, USA
-
Weston,J. et al. (2008) Deep learning via semi-supervised embedding. In ICML '08: Proceedings of the 25th International Conference on Machine Learning. ACM, New York, NY, USA, pp. 1168-1175.
-
(2008)
ICML '08: Proceedings of the 25th International Conference on Machine Learning
, pp. 1168-1175
-
-
Weston, J.1
-
32
-
-
19544389868
-
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
-
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
-
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
-
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
-
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
-
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
|