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Volumn 42, Issue 2, 2012, Pages 245-256

An effective measure for assessing the quality of biclusters

Author keywords

Biclustering; Gene expression data; Shifting and scaling patterns

Indexed keywords

BICLUSTERING; BICLUSTERS; EFFECTIVE MEASURES; GENE EXPRESSION DATA; ONE DIMENSION; QUALITY MEASURES; SHIFTING AND SCALING PATTERNS;

EID: 84855918173     PISSN: 00104825     EISSN: 18790534     Source Type: Journal    
DOI: 10.1016/j.compbiomed.2011.11.015     Document Type: Article
Times cited : (39)

References (50)
  • 2
    • 0036372484 scopus 로고    scopus 로고
    • Clustering by pattern similarity in large data sets, in: ACM SIGMOD International Conference on Management of Data, Madison, WI
    • H. Wang, W. Wang, J. Yang, P.S. Yu, Clustering by pattern similarity in large data sets, in: ACM SIGMOD International Conference on Management of Data, Madison, WI, 2002, pp. 394-405.
    • (2002) , pp. 394-405
    • Wang, H.1    Wang, W.2    Yang, J.3    Yu, P.S.4
  • 3
    • 84927511887 scopus 로고
    • Direct clustering of a data matrix
    • Hartigan J. Direct clustering of a data matrix. J. Am. Stat. Assoc. 1972, 67(337):123-129.
    • (1972) J. Am. Stat. Assoc. , vol.67 , Issue.337 , pp. 123-129
    • Hartigan, J.1
  • 4
    • 0034566393 scopus 로고    scopus 로고
    • Biclustering of expression data, in: Proceedings of the 8th International Conference on Intelligent Systems for Molecular Biology, La Jolla, CA
    • Y. Cheng, G.M. Church, Biclustering of expression data, in: Proceedings of the 8th International Conference on Intelligent Systems for Molecular Biology, La Jolla, CA, 2000, pp. 93-103.
    • (2000) , pp. 93-103
    • Cheng, Y.1    Church, G.M.2
  • 5
    • 0037057374 scopus 로고    scopus 로고
    • Exploring the conditional coregulation of yeast gene expression through fuzzy k-means clustering
    • research0059.1-0059.22
    • Gasch A.P., Eisen M.B. Exploring the conditional coregulation of yeast gene expression through fuzzy k-means clustering. Genome Biol. 2002, 3(11). research0059.1-0059.22.
    • (2002) Genome Biol. , vol.3 , Issue.11
    • Gasch, A.P.1    Eisen, M.B.2
  • 6
    • 11244306358 scopus 로고    scopus 로고
    • Discovering statistically significant biclusters in gene expression data
    • Tanay A., Sharan R., Shamir R. Discovering statistically significant biclusters in gene expression data. Bioinformatics 2002, 18:136-144.
    • (2002) Bioinformatics , vol.18 , pp. 136-144
    • Tanay, A.1    Sharan, R.2    Shamir, R.3
  • 7
    • 33645659540 scopus 로고    scopus 로고
    • Biclustering of expression data with evolutionary computation
    • Divina F., Aguilar-Ruiz J.S. Biclustering of expression data with evolutionary computation. IEEE Trans. Knowl. Data Eng. 2006, 18(5):590-602.
    • (2006) IEEE Trans. Knowl. Data Eng. , vol.18 , Issue.5 , pp. 590-602
    • Divina, F.1    Aguilar-Ruiz, J.S.2
  • 9
    • 33746228056 scopus 로고    scopus 로고
    • An improved biclustering method for analyzing gene expression profiles
    • Yang J., Wang H., Wang W., Yu P.S. An improved biclustering method for analyzing gene expression profiles. Int. J. Artif. Intell. Tools 2005, 14:771-790.
    • (2005) Int. J. Artif. Intell. Tools , vol.14 , pp. 771-790
    • Yang, J.1    Wang, H.2    Wang, W.3    Yu, P.S.4
  • 10
    • 33746098520 scopus 로고    scopus 로고
    • Application of simulated annealing to the biclustering of gene expression data
    • Bryan K., Cunningham P., Bolshakova N. Application of simulated annealing to the biclustering of gene expression data. IEEE Trans. Inform. Technol. Biomed. 2006, 10(3):519-525.
    • (2006) IEEE Trans. Inform. Technol. Biomed. , vol.10 , Issue.3 , pp. 519-525
    • Bryan, K.1    Cunningham, P.2    Bolshakova, N.3
  • 11
    • 84855941563 scopus 로고    scopus 로고
    • Application of cardinality based grasp to the biclustering of gene expression data
    • Das S., Idicula S.M. Application of cardinality based grasp to the biclustering of gene expression data. Int. J. Comput. Appl. 2010, 1(1):44-51.
    • (2010) Int. J. Comput. Appl. , vol.1 , Issue.1 , pp. 44-51
    • Das, S.1    Idicula, S.M.2
  • 12
    • 77958103052 scopus 로고    scopus 로고
    • Greedy search-binary PSO hybrid for biclustering gene expression data
    • Das S., Idicula S.M. Greedy search-binary PSO hybrid for biclustering gene expression data. Int. J. Comput. Appl. 2010, 2(3):1-5.
    • (2010) Int. J. Comput. Appl. , vol.2 , Issue.3 , pp. 1-5
    • Das, S.1    Idicula, S.M.2
  • 13
    • 77954649163 scopus 로고    scopus 로고
    • A novel clustering and verification based microarray data bi-clustering method
    • Zhang Y., Wang H., Hu Z. A novel clustering and verification based microarray data bi-clustering method. Proc. Int. Conf. Swarm Intell. 2010, 611-618.
    • (2010) Proc. Int. Conf. Swarm Intell. , pp. 611-618
    • Zhang, Y.1    Wang, H.2    Hu, Z.3
  • 14
    • 65449117238 scopus 로고    scopus 로고
    • Biclustering of microarray data with mospo based on crowding distance, BMC Bioinformatics
    • J. Liu, Z. Li, X. Hu, Y. Chen, Biclustering of microarray data with mospo based on crowding distance, BMC Bioinformatics 10 (S-4) (2009).
    • (2009) , vol.10 , Issue.S 4
    • Liu, J.1    Li, Z.2    Hu, X.3    Chen, Y.4
  • 15
    • 84855918710 scopus 로고    scopus 로고
    • Moaco biclustering of gene expression data, I
    • Liu J., Li Z., Hu X., Chen Y. Moaco biclustering of gene expression data, I. J. Funct. Inf. Pers. Med. 2010, 3(1):58-72.
    • (2010) J. Funct. Inf. Pers. Med. , vol.3 , Issue.1 , pp. 58-72
    • Liu, J.1    Li, Z.2    Hu, X.3    Chen, Y.4
  • 17
    • 34547602344 scopus 로고    scopus 로고
    • Possibilistic approach for biclustering microarray data
    • Cano C., Adarve L., López J., Blanco A. Possibilistic approach for biclustering microarray data. Comput. Biol. Med. 2007, 37(10):1426-1436.
    • (2007) Comput. Biol. Med. , vol.37 , Issue.10 , pp. 1426-1436
    • Cano, C.1    Adarve, L.2    López, J.3    Blanco, A.4
  • 18
    • 4444367133 scopus 로고    scopus 로고
    • Biclustering microarray data by Gibbs sampling
    • Sheng Q., Moreau Y., Moor B.D. Biclustering microarray data by Gibbs sampling. Bioinformatics 2003, 19(2):196-205.
    • (2003) Bioinformatics , vol.19 , Issue.2 , pp. 196-205
    • Sheng, Q.1    Moreau, Y.2    Moor, B.D.3
  • 19
    • 33645794993 scopus 로고    scopus 로고
    • Biclustering of gene expression data by non-smooth non-negative matrix factorization
    • doi: 10.1186/1471-2105-7-78
    • Carmona-Saez P., Pascual-Marqui R.D., Tirado F., Carazo J.M., Pascual-Montano A. Biclustering of gene expression data by non-smooth non-negative matrix factorization. BMC Bioinformatics 2006, 7(78). doi: 10.1186/1471-2105-7-78.
    • (2006) BMC Bioinformatics , vol.7 , Issue.78
    • Carmona-Saez, P.1    Pascual-Marqui, R.D.2    Tirado, F.3    Carazo, J.M.4    Pascual-Montano, A.5
  • 20
    • 33646191891 scopus 로고    scopus 로고
    • A linear time biclustering algorithm for time series gene expression data, in: Algorithms in Bioinformatics. International Workshop No. 5, Mallorca, Spain
    • S.C. Madeira, A.L. Oliveira, A linear time biclustering algorithm for time series gene expression data, in: Algorithms in Bioinformatics. International Workshop No. 5, Mallorca, Spain, 2005, pp. 39-52.
    • (2005) , pp. 39-52
    • Madeira, S.C.1    Oliveira, A.L.2
  • 21
    • 76249128966 scopus 로고    scopus 로고
    • A biclustering algorithm based on a bicluster enumeration tree: application to dna microarray data
    • Ayadi W., Elloumi M., Hao J.-K. A biclustering algorithm based on a bicluster enumeration tree: application to dna microarray data. BioData Min. 2009, 2(1):9.
    • (2009) BioData Min. , vol.2 , Issue.1 , pp. 9
    • Ayadi, W.1    Elloumi, M.2    Hao, J.-K.3
  • 24
    • 33845864692 scopus 로고    scopus 로고
    • Computing the maximum similarity bi-clusters of gene expression data
    • Liu X., Wang L. Computing the maximum similarity bi-clusters of gene expression data. Bioinformatics 2007, 23:50-56.
    • (2007) Bioinformatics , vol.23 , pp. 50-56
    • Liu, X.1    Wang, L.2
  • 26
    • 77956028282 scopus 로고    scopus 로고
    • Bagged biclustering for microarray data
    • IOS Press, Amsterdam, The Netherlands, URL:
    • Hanczar B., Nadif M. Bagged biclustering for microarray data. Proceeding of the 19th European Conference on Artificial Intelligence 2010, 1131-1132. IOS Press, Amsterdam, The Netherlands, URL: http://portal.acm.org/citation.cfm?id=1860967.1861240.
    • (2010) Proceeding of the 19th European Conference on Artificial Intelligence , pp. 1131-1132
    • Hanczar, B.1    Nadif, M.2
  • 27
    • 27544440058 scopus 로고    scopus 로고
    • Shifting and scaling patterns from gene expression data
    • Aguilar-Ruiz J.S. Shifting and scaling patterns from gene expression data. Bioinformatics 2005, 21:3840-3845.
    • (2005) Bioinformatics , vol.21 , pp. 3840-3845
    • Aguilar-Ruiz, J.S.1
  • 29
    • 0034598746 scopus 로고    scopus 로고
    • Distinct types of diffuse large b-cell lymphoma identified by gene expression profiling
    • Alizadeh A.A., Eisen M.B., Davis R.E., et al. Distinct types of diffuse large b-cell lymphoma identified by gene expression profiling. Nature 2000, 403:503-511.
    • (2000) Nature , vol.403 , pp. 503-511
    • Alizadeh, A.A.1    Eisen, M.B.2    Davis, R.E.3
  • 30
    • 33749620002 scopus 로고    scopus 로고
    • Mining shifting-and-scaling co-regulation patterns on gene expression profiles
    • X. Xu, Y. Lu, A.K.H. Tung, W. Wang, Mining shifting-and-scaling co-regulation patterns on gene expression profiles, 2006, pp. 89-99.
    • (2006) , pp. 89-99
    • Xu, X.1    Lu, Y.2    Tung, A.K.H.3    Wang, W.4
  • 31
    • 1542295220 scopus 로고    scopus 로고
    • The good of the many outweighs the good of the one: evolutionary multi-objective optimization
    • Corne D., Deb K., Fleming P.J. The good of the many outweighs the good of the one: evolutionary multi-objective optimization. IEEE Connect. Newslett. 2003, 1(1):9-13.
    • (2003) IEEE Connect. Newslett. , vol.1 , Issue.1 , pp. 9-13
    • Corne, D.1    Deb, K.2    Fleming, P.J.3
  • 33
    • 85133775397 scopus 로고    scopus 로고
    • A comprehensive survey of evolutionary-based multiobjective optimization techniques
    • C.A.C. Coello, A comprehensive survey of evolutionary-based multiobjective optimization techniques, Knowl. Inf. Syst. 1 (3) (1999) 129-156.
    • (1999) Knowl. Inf. Syst. , vol.1 , Issue.3 , pp. 129-156
    • Coello, C.A.C.1
  • 35
    • 0142149603 scopus 로고    scopus 로고
    • Comparison of multi-objective evolutionary algorithms on test functions of different difficulty
    • in: A.S. Wu (Ed.), Proceedings of the 1999 Genetic and Evolutionary Computation Conference. Workshop Program, Orlando, Florida
    • E. Zitzler, K. Deb, L. Thiele, Comparison of multi-objective evolutionary algorithms on test functions of different difficulty, in: A.S. Wu (Ed.), Proceedings of the 1999 Genetic and Evolutionary Computation Conference. Workshop Program, Orlando, Florida, 1999, pp. 121-122.
    • (1999) , pp. 121-122
    • Zitzler, E.1    Deb, K.2    Thiele, L.3
  • 38
    • 0000852513 scopus 로고
    • Multiobjective optimization using nondominated sorting in genetic algorithms
    • Srinivas N., Deb K. Multiobjective optimization using nondominated sorting in genetic algorithms. Evol. Comput. 1994, 2(3):221-248.
    • (1994) Evol. Comput. , vol.2 , Issue.3 , pp. 221-248
    • Srinivas, N.1    Deb, K.2
  • 39
    • 0033318858 scopus 로고    scopus 로고
    • Multiobjective evolutionary algorithms: a comparative case study and the strength Pareto evolutionary algorithm
    • Zitzler E., Thiele L. Multiobjective evolutionary algorithms: a comparative case study and the strength Pareto evolutionary algorithm. IEEE Trans. Evol. Comput. 1999, 3(4):257-271.
    • (1999) IEEE Trans. Evol. Comput. , vol.3 , Issue.4 , pp. 257-271
    • Zitzler, E.1    Thiele, L.2
  • 45
    • 0031915896 scopus 로고    scopus 로고
    • Large-scale temporal gene expression mapping of central nervous system development
    • X.W. et al., Large-scale temporal gene expression mapping of central nervous system development, 1998, pp. 334-339.
    • (1998) , pp. 334-339
    • Wen, X.1
  • 49
    • 80052151544 scopus 로고    scopus 로고
    • GO-based functional dissimilarity of gene sets
    • doi:10.1186/1471-2105-12-360
    • Diaz-Diaz N., Aguilar-Ruiz J.S. GO-based functional dissimilarity of gene sets. BMC Bioinformatics 2011, 12(1):360+. doi:10.1186/1471-2105-12-360.
    • (2011) BMC Bioinformatics , vol.12 , Issue.1
    • Diaz-Diaz, N.1    Aguilar-Ruiz, J.S.2
  • 50
    • 47049099111 scopus 로고    scopus 로고
    • Ontologizer 2.0-a multifunctional tool for go term enrichment analysis and data exploration
    • Bauer S., Grossmann S., Vingron M., Robinson P.N. Ontologizer 2.0-a multifunctional tool for go term enrichment analysis and data exploration. Bioinformatics 2008, 24(14):1650-1651.
    • (2008) Bioinformatics , vol.24 , Issue.14 , pp. 1650-1651
    • Bauer, S.1    Grossmann, S.2    Vingron, M.3    Robinson, P.N.4


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