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Volumn 9, Issue , 2008, Pages

Integration of relational and hierarchical network information for protein function prediction

Author keywords

[No Author keywords available]

Indexed keywords

COMPUTATIONALLY EFFICIENT; POSITIVE PREDICTIVE VALUES; PREDICTIVE CAPABILITIES; PROBABILISTIC FRAMEWORK; PROTEIN FUNCTION PREDICTION; PROTEIN-PROTEIN INTERACTION NETWORKS; PROTEIN-PROTEIN INTERACTIONS; YEAST SACCHAROMYCES CEREVISIAE;

EID: 51749110896     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-9-350     Document Type: Article
Times cited : (32)

References (26)
  • 1
    • 33845701686 scopus 로고    scopus 로고
    • The art of gene function prediction
    • 10.1038/nbt1206-1474 17160037
    • Murali TM Wu CJ Kasif S The art of gene function prediction Nature Biotechnology 2006, 24:1474-1475. 10.1038/nbt1206-1474 17160037
    • (2006) Nature Biotechnology , vol.24 , pp. 1474-1475
    • Murali, T.M.1    Wu, C.J.2    Kasif, S.3
  • 3
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • 146917 9254694 10.1093/nar/25.17.3389
    • Altschul SF Madden TL Schaffer A Zhang J Zhang Z Miller W Lipman DJ Gapped BLAST and PSI-BLAST: A new generation of protein database search programs Nucleic Acids Res 1997, 25(17):3389-402. 146917 9254694 10.1093/ nar/25.17.3389
    • (1997) Nucleic Acids Res , vol.25 , Issue.17 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schaffer, A.3    Zhang, J.4    Zhang, Z.5    Miller, W.6    Lipman, D.J.7
  • 4
    • 1542271409 scopus 로고    scopus 로고
    • Predicting protein function from protein/protein interaction data: A probabilistic approach
    • 10.1093/bioinformatics/btg1026 12855458
    • Letovsky S Kasif S Predicting protein function from protein/protein interaction data: A probabilistic approach Bioinformatics 2003, 19:i197-i204. 10.1093/bioinformatics/btg1026 12855458
    • (2003) Bioinformatics , vol.19
    • Letovsky, S.1    Kasif, S.2
  • 5
    • 0038492417 scopus 로고    scopus 로고
    • A bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae)
    • 166232 12826619 10.1073/pnas.0832373100
    • Troyanskaya OG Dolinski K Owen AB Altman RB Botstein D A bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae) Proc Natl Acad Sci USA 2003, 100:8348-8353. 166232 12826619 10.1073/pnas.0832373100
    • (2003) Proc Natl Acad Sci USA , vol.100 , pp. 8348-8353
    • Troyanskaya, O.G.1    Dolinski, K.2    Owen, A.B.3    Altman, R.B.4    Botstein, D.5
  • 6
    • 9444239213 scopus 로고    scopus 로고
    • A probabilistic functional network of yeast genes
    • 10.1126/science.1099511 15567862
    • Lee I Date SV Adai AT Marcotte EM A probabilistic functional network of yeast genes Science 2004, 306:1555-1558. 10.1126/science.1099511 15567862
    • (2004) Science , vol.306 , pp. 1555-1558
    • Lee, I.1    Date, S.V.2    Adai, A.T.3    Marcotte, E.M.4
  • 7
    • 55449131589 scopus 로고    scopus 로고
    • Probabilistic protein function prediction from heterogeneous genome-wide data
    • 1828618 17396164 10.1371/journal.pone.0000337
    • Nariai N Kolaczyk ED Kasif S Probabilistic protein function prediction from heterogeneous genome-wide data PLoS ONE 2007, 2(3):e337. 1828618 17396164 10.1371/journal.pone.0000337
    • (2007) PLoS ONE , vol.2 , Issue.3
    • Nariai, N.1    Kolaczyk, E.D.2    Kasif, S.3
  • 8
    • 3142665525 scopus 로고    scopus 로고
    • GOstat: Find statistically overrepresented Gene Ontologies within a group of genes
    • 10.1093/bioinformatics/bth088 14962934
    • Beissbarth T Speed TP GOstat: Find statistically overrepresented Gene Ontologies within a group of genes Bioinformatics 2004, 20(9):1464-5. 10.1093/bioinformatics/bth088 14962934
    • (2004) Bioinformatics , vol.20 , Issue.9 , pp. 1464-1465
    • Beissbarth, T.1    Speed, T.P.2
  • 9
    • 12344269924 scopus 로고    scopus 로고
    • GO::TermFinder-open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes
    • 10.1093/bioinformatics/bth456 15297299
    • Boyle EI Weng S Gollub J Jin H Botstein D Cherry JM Sherlock G GO::TermFinder-open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes Bioinformatics 2004, 20(18):3710-5. 10.1093/bioinformatics/bth456 15297299
    • (2004) Bioinformatics , vol.20 , Issue.18 , pp. 3710-3715
    • Boyle, E.I.1    Weng, S.2    Gollub, J.3    Jin, H.4    Botstein, D.5    Cherry, J.M.6    Sherlock, G.7
  • 10
    • 20444365683 scopus 로고    scopus 로고
    • GOToolBox: Functional analysis of gene datasets based on Gene Ontology
    • 545796 15575967 10.1186/gb-2004-5-12-r101
    • Martin D Brun C Remy E Mouren P Thieffry D Jacq B GOToolBox: Functional analysis of gene datasets based on Gene Ontology Genome Biol 2004, 5(12):R101. 545796 15575967 10.1186/gb-2004-5-12-r101
    • (2004) Genome Biol , vol.5 , Issue.12
    • Martin, D.1    Brun, C.2    Remy, E.3    Mouren, P.4    Thieffry, D.5    Jacq, B.6
  • 11
  • 12
    • 3142622851 scopus 로고    scopus 로고
    • An integrated analysis of protein function prediction
    • 10.1089/1066527041410346 15285902
    • Deng M Chen T Sun F An integrated analysis of protein function prediction Journal of Computational Biology 2004, 11:463-475. 10.1089/ 1066527041410346 15285902
    • (2004) Journal of Computational Biology , vol.11 , pp. 463-475
    • Deng, M.1    Chen, T.2    Sun, F.3
  • 13
    • 33645323768 scopus 로고    scopus 로고
    • Hierarchical multi-label prediction of gene function
    • 10.1093/bioinformatics/btk048 16410319
    • Barutcuoglu Z Schapire RE Troyanskaya OG Hierarchical multi-label prediction of gene function Bioinformatics 2006, 22:830-836. 10.1093/ bioinformatics/btk048 16410319
    • (2006) Bioinformatics , vol.22 , pp. 830-836
    • Barutcuoglu, Z.1    Schapire, R.E.2    Troyanskaya, O.G.3
  • 16
    • 33750304849 scopus 로고    scopus 로고
    • Gene function classification using Bayesian models with hierarchy-based priors
    • 1618412 17038174 10.1186/1471-2105-7-448
    • Shahbaba B Neal M Gene function classification using Bayesian models with hierarchy-based priors BMC Bioinformatics 2006, 7:448. 1618412 17038174 10.1186/1471-2105-7-448
    • (2006) BMC Bioinformatics , vol.7 , pp. 448
    • Shahbaba, B.1    Neal, M.2
  • 18
    • 84933530882 scopus 로고
    • Approximating discrete probability distributions with dependence trees
    • 10.1109/TIT.1968.1054142
    • Chow CK Liu CN Approximating discrete probability distributions with dependence trees IEEE Transactions on Information Theory 1968, IT-14(3):462-467. 10.1109/TIT.1968.1054142
    • (1968) IEEE Transactions on Information Theory , vol.IT-14 , Issue.3 , pp. 462-467
    • Chow, C.K.1    Liu, C.N.2
  • 19
    • 21744462998 scopus 로고    scopus 로고
    • On bias, variance, 0/1-loss, and the curse-of-dimensionality
    • 10.1023/A:1009778005914
    • Friedman JH On bias, variance, 0/1-loss, and the curse-of-dimensionality Data Mining and Knowledge Discovery 1997, 1:55-77. 10.1023/ A:1009778005914
    • (1997) Data Mining and Knowledge Discovery , vol.1 , pp. 55-77
    • Friedman, J.H.1
  • 20
    • 0242268461 scopus 로고    scopus 로고
    • Predicting protein functions from redundancies in large-scale protein interaction networks
    • 240660 14566057 10.1073/pnas.2132527100
    • Samanta MP Liang S Predicting protein functions from redundancies in large-scale protein interaction networks PNAS 2003, 100:12579-12583. 240660 14566057 10.1073/pnas.2132527100
    • (2003) PNAS , vol.100 , pp. 12579-12583
    • Samanta, M.P.1    Liang, S.2
  • 21
    • 1442329655 scopus 로고    scopus 로고
    • Functional classification of proteins for the prediction of cellular function from a protein-protein interaction network
    • 395738 14709178 10.1186/gb-2003-5-1-r6
    • Brun C Chevenet F Martin D Wojcik J Guenoche A Jacq B Functional classification of proteins for the prediction of cellular function from a protein-protein interaction network Genome Biology 2003, 5:R6. 395738 14709178 10.1186/gb-2003-5-1-r6
    • (2003) Genome Biology , vol.5
    • Brun, C.1    Chevenet, F.2    Martin, D.3    Wojcik, J.4    Guenoche, A.5    Jacq, B.6
  • 22
    • 33745619564 scopus 로고    scopus 로고
    • Exploiting indirect neighbours and topological weight to predict protein function from protein-protein interactions
    • 10.1093/bioinformatics/btl145 16632496
    • Chua HN Sung WK L W Exploiting indirect neighbours and topological weight to predict protein function from protein-protein interactions Bioinformatics 2006, 22(13):1623-1630. 10.1093/bioinformatics/btl145 16632496
    • (2006) Bioinformatics , vol.22 , Issue.13 , pp. 1623-1630
    • Chua, H.N.1    Sung, W.K.L.W.2
  • 23
    • 34447639783 scopus 로고    scopus 로고
    • Using indirect protein interactions for the prediction of Gene Ontology functions
    • 1892087 17570151 10.1186/1471-2105-8-S4-S8
    • Chua HN Sung WK L W Using indirect protein interactions for the prediction of Gene Ontology functions BMC Bioinformatics 2007, 8:S8. 1892087 17570151 10.1186/1471-2105-8-S4-S8
    • (2007) BMC Bioinformatics , vol.8
    • Chua, H.N.1    Sung, W.K.L.W.2
  • 24
    • 29144442904 scopus 로고    scopus 로고
    • Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps
    • 10.1093/bioinformatics/bti1054 15961472
    • Navieva E Jin K Agarwal A Chazelle B Singh M Whole-proteome prediction of protein function via graph-theoretic analysis of interaction maps Bioinformatics 2005, 21:i302-i310. 10.1093/bioinformatics/bti1054 15961472
    • (2005) Bioinformatics , vol.21
    • Navieva, E.1    Jin, K.2    Agarwal, A.3    Chazelle, B.4    Singh, M.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.