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Volumn 11, Issue , 2010, Pages

Automatic, context-specific generation of Gene Ontology slims

Author keywords

[No Author keywords available]

Indexed keywords

ANNOTATED DATASETS; BIOMEDICAL ONTOLOGIES; CREATION PROCESS; DATA-DRIVEN ALGORITHM; EFFICIENCY OF USE; EXPERT KNOWLEDGE; ONTOLOGY ENGINEERING; RESEARCH DOMAINS;

EID: 77957334901     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-11-498     Document Type: Article
Times cited : (34)

References (33)
  • 1
    • 0346801873 scopus 로고    scopus 로고
    • The Gene Ontology (GO) database and informatics resource
    • Database, GeneOntologyConsortium
    • GeneOntologyConsortium The Gene Ontology (GO) database and informatics resource. Nucleic Acids Research 2003, (32 Database):D258-D261. GeneOntologyConsortium.
    • (2003) Nucleic Acids Research , Issue.32
  • 5
    • 0035180589 scopus 로고    scopus 로고
    • The Arabidopsis Information Resource (TAIR): a comprehensive database and web-based information retrieval, analysis, and visualization system for a model plant
    • 10.1093/nar/29.1.102, 29827, 11125061
    • Huala E, Dickerman AW, Garcia-Hernandez M, Weems D, Reiser L, LaFond F, Hanley D, Kiphart D, Zhuang M, Huang W, et al. The Arabidopsis Information Resource (TAIR): a comprehensive database and web-based information retrieval, analysis, and visualization system for a model plant. Nucleic Acids Research 2001, 29(1):102-105. 10.1093/nar/29.1.102, 29827, 11125061.
    • (2001) Nucleic Acids Research , vol.29 , Issue.1 , pp. 102-105
    • Huala, E.1    Dickerman, A.W.2    Garcia-Hernandez, M.3    Weems, D.4    Reiser, L.5    LaFond, F.6    Hanley, D.7    Kiphart, D.8    Zhuang, M.9    Huang, W.10
  • 7
    • 0037396730 scopus 로고    scopus 로고
    • The Gene Ontology Annotation (GOA) Project: Implementation of GO in SWISS-PROT, TrEMBL and InterPro
    • 10.1101/gr.461403, 430163, 12654719
    • Camon E, Magrane M, Barrell D, Binns D, Fleischmann W, Kersey P, Mulder N, Oinn T, Maslen J, Cox A, et al. The Gene Ontology Annotation (GOA) Project: Implementation of GO in SWISS-PROT, TrEMBL and InterPro. Genome Research 2003, 13(4):662-672. 10.1101/gr.461403, 430163, 12654719.
    • (2003) Genome Research , vol.13 , Issue.4 , pp. 662-672
    • Camon, E.1    Magrane, M.2    Barrell, D.3    Binns, D.4    Fleischmann, W.5    Kersey, P.6    Mulder, N.7    Oinn, T.8    Maslen, J.9    Cox, A.10
  • 10
    • 34547834154 scopus 로고    scopus 로고
    • False positive reduction in protein-protein interaction predictions using gene ontology annotations
    • 10.1186/1471-2105-8-262, 1941744, 17645798
    • Mahdavi M, Lin Y-H. False positive reduction in protein-protein interaction predictions using gene ontology annotations. BMC Bioinformatics 2007, 8(1):262. 10.1186/1471-2105-8-262, 1941744, 17645798.
    • (2007) BMC Bioinformatics , vol.8 , Issue.1 , pp. 262
    • Mahdavi, M.1    Lin, Y.-.H.2
  • 11
    • 0037460964 scopus 로고    scopus 로고
    • Prediction of human protein function according to Gene Ontology categories
    • 10.1093/bioinformatics/btg036, 12651722
    • Jensen LJ, Gupta R, Staerfeldt HH, Brunak S. Prediction of human protein function according to Gene Ontology categories. Bioinformatics 2003, 19(5):635-642. 10.1093/bioinformatics/btg036, 12651722.
    • (2003) Bioinformatics , vol.19 , Issue.5 , pp. 635-642
    • Jensen, L.J.1    Gupta, R.2    Staerfeldt, H.H.3    Brunak, S.4
  • 12
    • 34249858233 scopus 로고    scopus 로고
    • Identifying clusters of functionally related genes in genomes
    • 10.1093/bioinformatics/btl673, 17237058
    • Yi G, Sze S-H, Thon MR. Identifying clusters of functionally related genes in genomes. Bioinformatics 2007, 23(9):1053-1060. 10.1093/bioinformatics/btl673, 17237058.
    • (2007) Bioinformatics , vol.23 , Issue.9 , pp. 1053-1060
    • Yi, G.1    Sze, S.-.H.2    Thon, M.R.3
  • 13
    • 45549107329 scopus 로고    scopus 로고
    • Use and misuse of the gene ontology annotations
    • 10.1038/nrg2363, 18475267
    • Rhee SY, Wood V, Dolinski K, Draghici S. Use and misuse of the gene ontology annotations. Nature Reviews Genetics 2008, 9:509-515. 10.1038/nrg2363, 18475267.
    • (2008) Nature Reviews Genetics , vol.9 , pp. 509-515
    • Rhee, S.Y.1    Wood, V.2    Dolinski, K.3    Draghici, S.4
  • 17
  • 18
    • 40049097048 scopus 로고    scopus 로고
    • Taxonomy-based partitioning of the Gene Ontology
    • 10.1016/j.jbi.2007.07.007, 17921072
    • Kuśnierczyk W. Taxonomy-based partitioning of the Gene Ontology. Journal of Biomedical Informatics 2008, 41:282-292. 10.1016/j.jbi.2007.07.007, 17921072.
    • (2008) Journal of Biomedical Informatics , vol.41 , pp. 282-292
    • Kuśnierczyk, W.1
  • 19
    • 34447294237 scopus 로고    scopus 로고
    • A new method to measure the semantic similarity of GO terms
    • 10.1093/bioinformatics/btm087, 17344234
    • Wang JZ, Du Z, Payattakool R, Yu PS, Chen C-F. A new method to measure the semantic similarity of GO terms. Bioinformatics 2007, 23(10):1274-1281. 10.1093/bioinformatics/btm087, 17344234.
    • (2007) Bioinformatics , vol.23 , Issue.10 , pp. 1274-1281
    • Wang, J.Z.1    Du, Z.2    Payattakool, R.3    Yu, P.S.4    Chen, C.-.F.5
  • 20
    • 34547840224 scopus 로고    scopus 로고
    • Information theory applied to the sparse gene ontology annotation network to predict novel gene function
    • 10.1093/bioinformatics/btm195, 2882681, 17646340
    • Tao Y, Sam L, Li J, Friedman C, Lussier YA. Information theory applied to the sparse gene ontology annotation network to predict novel gene function. Bioinformatics 2007, 23(13):i529-538. 10.1093/bioinformatics/btm195, 2882681, 17646340.
    • (2007) Bioinformatics , vol.23 , Issue.13
    • Tao, Y.1    Sam, L.2    Li, J.3    Friedman, C.4    Lussier, Y.A.5
  • 22
    • 34548558977 scopus 로고    scopus 로고
    • Total ancestry measure: quantifying the similarity in tree-like classification, with genomic applications
    • 10.1093/bioinformatics/btm291, 17540677
    • Yu H, Jansen R, Stolovitzky G, Gerstein M. Total ancestry measure: quantifying the similarity in tree-like classification, with genomic applications. Bioinformatics 2007, 23(16):2163-2173. 10.1093/bioinformatics/btm291, 17540677.
    • (2007) Bioinformatics , vol.23 , Issue.16 , pp. 2163-2173
    • Yu, H.1    Jansen, R.2    Stolovitzky, G.3    Gerstein, M.4
  • 24
    • 0002016474 scopus 로고    scopus 로고
    • Semantic similarity in a taxonomy: An information-based measure and its application to problems of ambiguity in natural language
    • Resnik P. Semantic similarity in a taxonomy: An information-based measure and its application to problems of ambiguity in natural language. Journal of Artificial Intelligence Research 1999, 11:95-130.
    • (1999) Journal of Artificial Intelligence Research , vol.11 , pp. 95-130
    • Resnik, P.1
  • 25
    • 41449112812 scopus 로고    scopus 로고
    • Defining functional distances over Gene Ontology
    • 10.1186/1471-2105-9-50, 2375122, 18221506
    • del Pozo A, Pazos F, Valencia A. Defining functional distances over Gene Ontology. BMC Bioinformatics 2008, 9(1):50. 10.1186/1471-2105-9-50, 2375122, 18221506.
    • (2008) BMC Bioinformatics , vol.9 , Issue.1 , pp. 50
    • del Pozo, A.1    Pazos, F.2    Valencia, A.3
  • 29
    • 34547799698 scopus 로고    scopus 로고
    • EasyGO: Gene Ontology-based annotation and functional enrichment analysis tool for agronomical species
    • 10.1186/1471-2164-8-246, 1940007, 17645808
    • Zhou X, Zu Z. EasyGO: Gene Ontology-based annotation and functional enrichment analysis tool for agronomical species. BMC Genomics 2007, 8:246. 10.1186/1471-2164-8-246, 1940007, 17645808.
    • (2007) BMC Genomics , vol.8 , pp. 246
    • Zhou, X.1    Zu, Z.2
  • 30
    • 48449104617 scopus 로고    scopus 로고
    • GOEAST: a web-based software toolkit for Gene Ontology enrichment analysis
    • Web Server
    • Zheng Q, Wang X-J. GOEAST: a web-based software toolkit for Gene Ontology enrichment analysis. Nucleic Acids Res 2008, (36 Web Server):358-363.
    • (2008) Nucleic Acids Res , Issue.36 , pp. 358-363
    • Zheng, Q.1    Wang, X.-.J.2
  • 31
    • 0032561246 scopus 로고    scopus 로고
    • The transcriptional program of sporulation in budding yeast
    • 10.1126/science.282.5389.699, 9784122
    • Chu S, DeRisi J, Eisen M, Mulholland J, Botstein D, Brown PO, Herskowitz I. The transcriptional program of sporulation in budding yeast. Science 1998, 282(5389):699-705. 10.1126/science.282.5389.699, 9784122.
    • (1998) Science , vol.282 , Issue.5389 , pp. 699-705
    • Chu, S.1    DeRisi, J.2    Eisen, M.3    Mulholland, J.4    Botstein, D.5    Brown, P.O.6    Herskowitz, I.7
  • 32
    • 0028931857 scopus 로고
    • Multiple significance tests: the Bonferroni method
    • 2548561, 7833759
    • Bland JM, Altman DG. Multiple significance tests: the Bonferroni method. British Medical Journal 1995, 310:170. 2548561, 7833759.
    • (1995) British Medical Journal , vol.310 , pp. 170
    • Bland, J.M.1    Altman, D.G.2
  • 33
    • 0001677717 scopus 로고
    • Controlling the False Discovery Rate: a Practical and Powerful Approach to Multiple Testing
    • Benjamini Y, Hochberg Y. Controlling the False Discovery Rate: a Practical and Powerful Approach to Multiple Testing. Journal of the Royal Statistical Society B 1995, 57(1):289-300.
    • (1995) Journal of the Royal Statistical Society B , vol.57 , Issue.1 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.