메뉴 건너뛰기




Volumn 4660 LNAI, Issue , 2007, Pages 273-289

Logic and the automatic acquisition of scientific knowledge: An application to functional genomics

Author keywords

[No Author keywords available]

Indexed keywords

BIOINFORMATICS; DATA REDUCTION; GENETIC ENGINEERING; LEARNING SYSTEMS; LOGIC PROGRAMMING;

EID: 38149064530     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-540-73920-3_13     Document Type: Conference Paper
Times cited : (1)

References (74)
  • 1
    • 0034708480 scopus 로고    scopus 로고
    • The genome sequence of Drosophilia Melanogaster
    • Adams, et al.: The genome sequence of Drosophilia Melanogaster. Science 287, 2185-2195 (2000)
    • (2000) Science , vol.287 , pp. 2185-2195
    • Adams1
  • 2
    • 0034598746 scopus 로고    scopus 로고
    • Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling
    • Alizadeh, A., et al.: Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature 403, 503-511 (2000)
    • (2000) Nature , vol.403 , pp. 503-511
    • Alizadeh, A.1
  • 4
    • 0034649566 scopus 로고    scopus 로고
    • Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    • The Arabidopsis genome initiative
    • The Arabidopsis genome initiative. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408, 796-815 (2000)
    • (2000) Nature , vol.408 , pp. 796-815
  • 5
    • 0033957834 scopus 로고    scopus 로고
    • The SWISS-PROT protein sequence database and its supplement. TrEMBL
    • Bairoch, A., Apweiler, R.: The SWISS-PROT protein sequence database and its supplement. TrEMBL Nucleic Acids Research 28, 45-18 (2000)
    • (2000) Nucleic Acids Research , vol.28 , pp. 45-18
    • Bairoch, A.1    Apweiler, R.2
  • 6
    • 0032784646 scopus 로고    scopus 로고
    • Proteomics: Quantitative and physical mapping of cellular proteins
    • Blackstock, W.P., Weir, M.P.: Proteomics: quantitative and physical mapping of cellular proteins. Tibtech 17, 121-127 (1999)
    • (1999) Tibtech , vol.17 , pp. 121-127
    • Blackstock, W.P.1    Weir, M.P.2
  • 7
    • 15444350252 scopus 로고    scopus 로고
    • The complete genome sequence of Escherichia coli K-12
    • Blattner, F.R., et al.: The complete genome sequence of Escherichia coli K-12. Science 277, 1453-1461 (1997)
    • (1997) Science , vol.277 , pp. 1453-1461
    • Blattner, F.R.1
  • 11
    • 0033119399 scopus 로고    scopus 로고
    • Errors in gene annotation
    • Brenner, E.: Errors in gene annotation. Trends in Genetics 15, 132-133 (1999)
    • (1999) Trends in Genetics , vol.15 , pp. 132-133
    • Brenner, E.1
  • 12
    • 0033528999 scopus 로고    scopus 로고
    • Brent, R.: Functional genomics: Learning to think about gene expression data. Current Biology 9, 338-R341 (1999)
    • Brent, R.: Functional genomics: Learning to think about gene expression data. Current Biology 9, 338-R341 (1999)
  • 13
    • 84984932472 scopus 로고    scopus 로고
    • Exploring the new world of the genome with DNA microarrays
    • Brown, P.O., Botstein, D.: Exploring the new world of the genome with DNA microarrays. Nature Genetics 21, 33-37 (1999)
    • (1999) Nature Genetics , vol.21 , pp. 33-37
    • Brown, P.O.1    Botstein, D.2
  • 14
    • 0013414812 scopus 로고
    • Heuristic DENDRAL: A program for generating explanatory hypotheses in organic chemistry
    • Meltzer, B, Michie, D, eds, Edinburgh University Press
    • Buchanan, B.G., Sutherland, G.L., Feigenbaum, E.A.: Heuristic DENDRAL: A program for generating explanatory hypotheses in organic chemistry. In: Meltzer, B., Michie, D. (eds.) Machine Intelligence 4, pp. 209-254 Edinburgh University Press (1969)
    • (1969) Machine Intelligence , vol.4 , pp. 209-254
    • Buchanan, B.G.1    Sutherland, G.L.2    Feigenbaum, E.A.3
  • 15
    • 0031302034 scopus 로고    scopus 로고
    • Bussey, H.: 1997 ushers in an era of yeast functional genomics. Yeast 13, 1501-1503 (1997)
    • Bussey, H.: 1997 ushers in an era of yeast functional genomics. Yeast 13, 1501-1503 (1997)
  • 16
    • 0032509302 scopus 로고    scopus 로고
    • C. elegans Sequencing Consortium: Genome sequence of the nematode C. elegans: A platform for investigating biology. Science 282, 2012-2018 (1998)
    • C. elegans Sequencing Consortium: Genome sequence of the nematode C. elegans: A platform for investigating biology. Science 282, 2012-2018 (1998)
  • 17
    • 0032508046 scopus 로고    scopus 로고
    • Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence
    • Cole, ST., et al.: Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature 393, 537-544 (1998)
    • (1998) Nature , vol.393 , pp. 537-544
    • Cole, S.T.1
  • 18
    • 0035451897 scopus 로고    scopus 로고
    • Parameter estimation in stochastic logic programs
    • Cussens, J.: Parameter estimation in stochastic logic programs. Machine Learning 44, 245-271 (2001)
    • (2001) Machine Learning , vol.44 , pp. 245-271
    • Cussens, J.1
  • 20
    • 0030669030 scopus 로고    scopus 로고
    • Exploring the metabolic and genetic control of gene expression on a genomic scale
    • DeRisi, J.L., Iyer, V.R., Brown, P.O.: Exploring the metabolic and genetic control of gene expression on a genomic scale. Science 278, 680-686 (1997)
    • (1997) Science , vol.278 , pp. 680-686
    • DeRisi, J.L.1    Iyer, V.R.2    Brown, P.O.3
  • 21
    • 84949211118 scopus 로고    scopus 로고
    • Experiments in Predicting Biodegradability
    • Džeroski, S, Flach, P.A, eds, Inductive Logic Programming, Springer, Heidelberg
    • Džeroski, S., Blockeel, H., Kompare, B., Kramer, S., Pfahringer, B., Van Laer, W.: Experiments in Predicting Biodegradability. In: Džeroski, S., Flach, P.A. (eds.) Inductive Logic Programming. LNCS (LNAI), vol. 1634, pp. 80-91. Springer, Heidelberg (1999)
    • (1999) LNCS (LNAI , vol.1634 , pp. 80-91
    • Džeroski, S.1    Blockeel, H.2    Kompare, B.3    Kramer, S.4    Pfahringer, B.5    Van Laer, W.6
  • 24
    • 0031997218 scopus 로고    scopus 로고
    • Pharmacophore discovery using the inductive logic programming system Progol
    • Finn, P., Muggleton, S., Page, D., Srinivasan, A.: Pharmacophore discovery using the inductive logic programming system Progol. Machine Learning 30, 241-271 (1998)
    • (1998) Machine Learning , vol.30 , pp. 241-271
    • Finn, P.1    Muggleton, S.2    Page, D.3    Srinivasan, A.4
  • 25
    • 84874455572 scopus 로고    scopus 로고
    • Flach, P.A., Giraud-Carrier, C., Llyoyd, J.W.: Strongly typed inductive concept learning. In: Page, D.L. (ed.) Inductive Logic Programming. LNCS, 1446, pp. 185-194. Springer, Heidelberg (1998)
    • Flach, P.A., Giraud-Carrier, C., Llyoyd, J.W.: Strongly typed inductive concept learning. In: Page, D.L. (ed.) Inductive Logic Programming. LNCS, vol. 1446, pp. 185-194. Springer, Heidelberg (1998)
  • 26
    • 38149075991 scopus 로고    scopus 로고
    • A new design and implementation of Progol by bottom-up computation
    • Inductive Logic Programming, Springer, Heidelberg
    • Fujita, H., Yagi, N., Ozaki, T., Furukawa, K.: A new design and implementation of Progol by bottom-up computation. In: Inductive Logic Programming. LNCS, vol. 1314, pp. 163-174. Springer, Heidelberg (1997)
    • (1997) LNCS , vol.1314 , pp. 163-174
    • Fujita, H.1    Yagi, N.2    Ozaki, T.3    Furukawa, K.4
  • 27
    • 38149062064 scopus 로고    scopus 로고
    • FUNCTION - http://www.aber.ac.uk/compsci/Research/bio/ ProteinFunctionGenProtEC-http://genprotec.mbl.edu
    • FUNCTION - http://www.aber.ac.uk/compsci/Research/bio/ ProteinFunctionGenProtEC-http://genprotec.mbl.edu
  • 29
    • 10244239321 scopus 로고    scopus 로고
    • Life with 6000 genes
    • Goffeau, A., et al.: Life with 6000 genes. Science 274, 546-567 (1996)
    • (1996) Science , vol.274 , pp. 546-567
    • Goffeau, A.1
  • 31
    • 38149127183 scopus 로고    scopus 로고
    • HGP - http://www.sanger.ac.uk/HGP
    • HGP - http
  • 32
    • 0030725715 scopus 로고    scopus 로고
    • Functional genomics: It's all how you read it
    • Hieter, P., Boguski, N.: Functional genomics: it's all how you read it. Science 278, 601-602 (1997)
    • (1997) Science , vol.278 , pp. 601-602
    • Hieter, P.1    Boguski, N.2
  • 33
    • 0030751010 scopus 로고    scopus 로고
    • Proteome research: Complementarity and limitations with respect to the RNA and DNA worlds
    • Humphery-Smith, I., Cordwell, S.J., Blackstock, W.P.: Proteome research: complementarity and limitations with respect to the RNA and DNA worlds. Electrophoresis 18, 1217-1242 (1997)
    • (1997) Electrophoresis , vol.18 , pp. 1217-1242
    • Humphery-Smith, I.1    Cordwell, S.J.2    Blackstock, W.P.3
  • 34
    • 2042437650 scopus 로고    scopus 로고
    • Initial Sequencing and analysis of the human genome
    • International human genome sequencing consortium
    • International human genome sequencing consortium: Initial Sequencing and analysis of the human genome. Nature 409, 860-921 (2001)
    • (2001) Nature , vol.409 , pp. 860-921
  • 35
    • 0034160040 scopus 로고    scopus 로고
    • On the optimization of classes for the assignment of unidentified reading frames in functional genomics programmes: The need for machine learning
    • Kell, D., King, R.D.: On the optimization of classes for the assignment of unidentified reading frames in functional genomics programmes: the need for machine learning. Trends in Biotechnology 18, 93-98 (2000)
    • (2000) Trends in Biotechnology , vol.18 , pp. 93-98
    • Kell, D.1    King, R.D.2
  • 37
    • 0026459988 scopus 로고
    • Drug design by machine learning the use of inductive logic programming to model the structure-activity-relationships of trimethoprim analogs binding to dihydrofolate-reductase
    • King, R.D., Muggleton, S., Lewis, R.A., Sternberg, M.J.E.: Drug design by machine learning the use of inductive logic programming to model the structure-activity-relationships of trimethoprim analogs binding to dihydrofolate-reductase. Proceedings of the National Academy of Sciences of the USA 89, 11322-11326 (1992)
    • (1992) Proceedings of the National Academy of Sciences of the USA , vol.89 , pp. 11322-11326
    • King, R.D.1    Muggleton, S.2    Lewis, R.A.3    Sternberg, M.J.E.4
  • 38
    • 0028173591 scopus 로고
    • On the use of machine learning to identify topological rules in the packing of beta-strands
    • King, R.D., Clark, D.A., Shirazi, J., Sternberg, M.J.E.: On the use of machine learning to identify topological rules in the packing of beta-strands. Protein Engineering 7, 1295-1303 (1994)
    • (1994) Protein Engineering , vol.7 , pp. 1295-1303
    • King, R.D.1    Clark, D.A.2    Shirazi, J.3    Sternberg, M.J.E.4
  • 39
    • 0030044168 scopus 로고    scopus 로고
    • Structure-activity relationships derived by machine learning: The use of atoms and their bond connectivities to predict mutagenicity by inductive logic programming
    • King, R.D., Muggleton, S.H., Srinivasan, A., Sternberg, M.J.E.: Structure-activity relationships derived by machine learning: The use of atoms and their bond connectivities to predict mutagenicity by inductive logic programming. Proceedings of the National Academy of Sciences of the USA 93, 438-442 (1996)
    • (1996) Proceedings of the National Academy of Sciences of the USA , vol.93 , pp. 438-442
    • King, R.D.1    Muggleton, S.H.2    Srinivasan, A.3    Sternberg, M.J.E.4
  • 40
    • 0034592764 scopus 로고    scopus 로고
    • Genome scale prediction of protein functional class from sequence using data mining
    • Ramakrishnan, R, Stolfo, S, Bayardo, R, Parsa, I, eds, The Association for Computing Machinery, New York, USA, pp
    • King, R.D., Karwath, A., Clare, A., Dehapse, L.: Genome scale prediction of protein functional class from sequence using data mining. In: Ramakrishnan, R., Stolfo, S., Bayardo, R., Parsa, I. (eds.) The Sixth ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. The Association for Computing Machinery, New York, USA, pp. 384-389 (2000a)
    • (2000) The Sixth ACM SIGKDD International Conference on Knowledge Discovery and Data Mining , pp. 384-389
    • King, R.D.1    Karwath, A.2    Clare, A.3    Dehapse, L.4
  • 41
    • 0000875752 scopus 로고    scopus 로고
    • King, R.D., Karwath, A., Clare, A., Dehapse, L.: Accurate prediction of protein class in the M. tuberculosis and E. coli genomes using data mining. Yeast (Comparative and Functional Genomics) 17, 283-293 (2000b)
    • King, R.D., Karwath, A., Clare, A., Dehapse, L.: Accurate prediction of protein class in the M. tuberculosis and E. coli genomes using data mining. Yeast (Comparative and Functional Genomics) 17, 283-293 (2000b)
  • 42
    • 0035006162 scopus 로고    scopus 로고
    • The utility of different representations of protein sequence for predicting functional class
    • King, R.D., Karwath, A., Clare, A., Dehapse, L.: The utility of different representations of protein sequence for predicting functional class. Bioinformatics 17, 445-454 (2001)
    • (2001) Bioinformatics , vol.17 , pp. 445-454
    • King, R.D.1    Karwath, A.2    Clare, A.3    Dehapse, L.4
  • 44
    • 1942515438 scopus 로고    scopus 로고
    • Propositionalization approaches to relational data mining
    • Dzeroski, S, Lavrac, N, eds, Springer, Heidelberg
    • Kramer, S., Lavrac, N., Flach, P.: Propositionalization approaches to relational data mining. In: Dzeroski, S., Lavrac, N. (eds.) Relational Data Mining, Springer, Heidelberg (2001)
    • (2001) Relational Data Mining
    • Kramer, S.1    Lavrac, N.2    Flach, P.3
  • 48
    • 9444249299 scopus 로고    scopus 로고
    • Inductive database and condensed representations for data mining
    • Maluszynski, J, ed, MIT Press, Cambridge
    • Mannila, H., Inductive database and condensed representations for data mining. In: Maluszynski, J. (ed.) Proceedings of the International Logic Programming Symposium, pp. 21-30. MIT Press, Cambridge (1997)
    • (1997) Proceedings of the International Logic Programming Symposium , pp. 21-30
    • Mannila, H.1
  • 49
    • 21944442464 scopus 로고    scopus 로고
    • Levelwise search and borders of theories in knowledge discovery
    • Mannila, H., Toivonen, H.: Levelwise search and borders of theories in knowledge discovery. Data Mining and Knowledge Discovery 1, 241-258 (1997)
    • (1997) Data Mining and Knowledge Discovery , vol.1 , pp. 241-258
    • Mannila, H.1    Toivonen, H.2
  • 50
  • 55
    • 0026492833 scopus 로고
    • Protein secondary structure prediction using logic-based machine learning
    • Muggleton, S., King, R.D., Sternberg, M.J.E.: Protein secondary structure prediction using logic-based machine learning. Protein Engineering 5, 647-657 (1992)
    • (1992) Protein Engineering , vol.5 , pp. 647-657
    • Muggleton, S.1    King, R.D.2    Sternberg, M.J.E.3
  • 57
    • 0006617064 scopus 로고    scopus 로고
    • The yeast genome: Systematic analysis of DNA sequence and biological function
    • Copping, L.G, Dixon, G.K, Livingstone, D.J, eds, Bios, pp, Oxford
    • Oliver, S.G., Baganz, F.: The yeast genome: systematic analysis of DNA sequence and biological function. In: Copping, L.G., Dixon, G.K., Livingstone, D.J. (eds.) Genomics: commercial opportunities from a scientific revolution, Bios, pp. 37-51, Oxford (1998)
    • (1998) Genomics: Commercial opportunities from a scientific revolution , pp. 37-51
    • Oliver, S.G.1    Baganz, F.2
  • 58
    • 0033933636 scopus 로고    scopus 로고
    • Cascaded multiple classifiers for secondary structure prediction
    • Ouali, M., King, R.D.: Cascaded multiple classifiers for secondary structure prediction. Protein Science 9, 1162-1176 (2000)
    • (2000) Protein Science , vol.9 , pp. 1162-1176
    • Ouali, M.1    King, R.D.2
  • 60
    • 38149070230 scopus 로고    scopus 로고
    • Plato - http://plato.stanford.edu/entries/logic-relevance
    • Plato
  • 61
    • 38149101000 scopus 로고    scopus 로고
    • Quinlan, R.: C4.5: Programs for machine learning. Morgan Kaufmann, San Mateo (1993)
    • Quinlan, R.: C4.5: Programs for machine learning. Morgan Kaufmann, San Mateo (1993)
  • 62
    • 0034607880 scopus 로고    scopus 로고
    • Whither the Future of Controlling Quantum Phenomena?
    • Rabitz, H., de Vivie-Riedle, R., Motzkus, M., Kompa, K.: Whither the Future of Controlling Quantum Phenomena? Science 288, 824-828 (2000)
    • (2000) Science , vol.288 , pp. 824-828
    • Rabitz, H.1    de Vivie-Riedle, R.2    Motzkus, M.3    Kompa, K.4
  • 63
    • 0033542408 scopus 로고    scopus 로고
    • It's sink or swim as a tidal wave of data approaches
    • Reichardt, T.: It's sink or swim as a tidal wave of data approaches. Nature 399, 517-520 (1999)
    • (1999) Nature , vol.399 , pp. 517-520
    • Reichardt, T.1
  • 65
    • 26444587991 scopus 로고
    • An Architecture for Theory-Driven Scientific Discovery
    • Morik, K, ed, Session on Learning, pp, Pitman, London
    • Sleeman, D.H., Stacy, M.K., Edwards, P., Gray, N.A.B.: An Architecture for Theory-Driven Scientific Discovery. In: Morik, K. (ed.) Proceedings of the Fourth European Working Session on Learning, pp. 11-23, Pitman, London (1989)
    • (1989) Proceedings of the Fourth European Working , pp. 11-23
    • Sleeman, D.H.1    Stacy, M.K.2    Edwards, P.3    Gray, N.A.B.4
  • 66
    • 22644452635 scopus 로고    scopus 로고
    • Feature construction with Inductive Logic Programming: A study of quantitative predictions of biological activity aided by structural attributes
    • Srinivasan, A., King, R.D.: Feature construction with Inductive Logic Programming: A study of quantitative predictions of biological activity aided by structural attributes. Data Mining and Knowledge Discovery 3, 37-57 (1999)
    • (1999) Data Mining and Knowledge Discovery , vol.3 , pp. 37-57
    • Srinivasan, A.1    King, R.D.2
  • 67
    • 22644449927 scopus 로고    scopus 로고
    • A study of two probabilistic methods for searching large spaces with ILP
    • Srinivasan, A.: A study of two probabilistic methods for searching large spaces with ILP. Data Mining and Knowledge Discovery 3, 95-123 (2001)
    • (2001) Data Mining and Knowledge Discovery , vol.3 , pp. 95-123
    • Srinivasan, A.1
  • 69
    • 38149069016 scopus 로고    scopus 로고
    • TB - http:/www.sanger.ac.uk/Projects/M_tuberculosis/gene_list_full.shtm
    • TB - http
  • 71
    • 0035312292 scopus 로고    scopus 로고
    • The effect of relational background knowledge on learning of protein three-dimensional fold signatures
    • Turcotte, M., Muggleton, S.H., Sternberg, M.J.E.: The effect of relational background knowledge on learning of protein three-dimensional fold signatures. Machine Learning 12, 81-96 (2001)
    • (2001) Machine Learning , vol.12 , pp. 81-96
    • Turcotte, M.1    Muggleton, S.H.2    Sternberg, M.J.E.3
  • 73
    • 0002203936 scopus 로고    scopus 로고
    • Discovery tools for science applications
    • Valdes-Perez, R.E.: Discovery tools for science applications. Communications of the ACM 42, 37-41 (1999)
    • (1999) Communications of the ACM , vol.42 , pp. 37-41
    • Valdes-Perez, R.E.1
  • 74
    • 0035895505 scopus 로고    scopus 로고
    • The sequence of the human genome
    • Venter, J.C., et al.: The sequence of the human genome. Science 291, 1304-1351 (2001)
    • (2001) Science , vol.291 , pp. 1304-1351
    • Venter, J.C.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.