메뉴 건너뛰기




Volumn 9780387475097, Issue , 2007, Pages 123-148

Clustering - Class discovery in the post-genomic era

Author keywords

[No Author keywords available]

Indexed keywords

DNA MICROARRAY TECHNOLOGY; GENOMIC ERA; HISTORICAL PERSPECTIVE; REPRODUCIBILITIES;

EID: 37549008515     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1007/978-0-387-47509-7_6     Document Type: Chapter
Times cited : (4)

References (93)
  • 1
    • 1542399989 scopus 로고    scopus 로고
    • FatiGO: A web tool for finding significant associations of gene ontology terms with groups of genes
    • Al-Shahrour, F., Diaz-Uriarte, R., and Dopazo, J. (2004). FatiGO: A web tool for finding significant associations of gene ontology terms with groups of genes. Bioinformatics, 20(4):578-580.
    • (2004) Bioinformatics , vol.20 , Issue.4 , pp. 578-580
    • Al-Shahrour, F.1    Diaz-Uriarte, R.2    Dopazo, J.3
  • 2
    • 21444442035 scopus 로고    scopus 로고
    • Discovering molecular functions significantly related to phenotypes by combining gene expression data and biological information
    • Al-Shahrour, F., Diaz-Uriarte, R., and Dopazo, J. (2005a). Discovering molecular functions significantly related to phenotypes by combining gene expression data and biological information. Bioinformatics, 21(13):2988-2993.
    • (2005) Bioinformatics , vol.21 , Issue.13 , pp. 2988-2993
    • Al-Shahrour, F.1    Diaz-Uriarte, R.2    Dopazo, J.3
  • 3
    • 84889826091 scopus 로고    scopus 로고
    • Ontologies and functional genomics
    • Azuaje, F. and Dopazo, J., editors, Wiley, West Sussex, UK
    • Al-Shahrour, F. and Dopazo, J. (2005). Ontologies and functional genomics. In Azuaje, F. and Dopazo, J., editors, Data analysis and visualization in genomics and proteomics, pages 99-112. Wiley, West Sussex, UK.
    • (2005) Data Analysis and Visualization in Genomics and Proteomics , pp. 99-112
    • Al-Shahrour, F.1    Dopazo, J.2
  • 5
    • 21444445084 scopus 로고    scopus 로고
    • BABELOMICS: A suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments
    • Al-Shahrour, F., Minguez, P., Vaquerizas, J. M., Conde, L., and Dopazo, J. (2005b). BABELOMICS: A suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments. Nucleic Acids Res., 33:W460-464.
    • (2005) Nucleic Acids Res. , vol.33 , pp. W460-W464
    • Al-Shahrour, F.1    Minguez, P.2    Vaquerizas, J.M.3    Conde, L.4    Dopazo, J.5
  • 6
    • 0034598746 scopus 로고    scopus 로고
    • Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling
    • Alizadeh, A. A., Eisen, M. B., and Davis, R. E., et al. (2000). Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature, 403(503):511.
    • (2000) Nature , vol.403 , Issue.503 , pp. 511
    • Alizadeh, A.A.1    Eisen, M.B.2    Davis, R.E.3
  • 7
    • 0033536012 scopus 로고    scopus 로고
    • Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays
    • Alon, U., Barkai, N., Notterman, D. A., Gish, K., Ybarra, S., Mack, D., and Levine, A. J. (1999). Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays. Proc. Natl. Acad. Sci. USA, 96(12):6745-6750.
    • (1999) Proc. Natl. Acad. Sci. USA , vol.96 , Issue.12 , pp. 6745-6750
    • Alon, U.1    Barkai, N.2    Notterman, D.A.3    Gish, K.4    Ybarra, S.5    Mack, D.6    Levine, A.J.7
  • 8
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: Tool for the unification of biology
    • Ashburner, M., Ball, C. A., and Blake, J. A., et al. (2000). Gene ontology: Tool for the unification of biology. Nat. Genet., 25:25-29.
    • (2000) Nat. Genet. , vol.25 , pp. 25-29
    • Ashburner, M.1    Ball, C.A.2    Blake, J.A.3
  • 9
    • 0036191191 scopus 로고    scopus 로고
    • A cluster validity framework for genome expression data
    • Azuaje, F. (2002). A cluster validity framework for genome expression data. Bioinformatics, 18(2):319-320.
    • (2002) Bioinformatics , vol.18 , Issue.2 , pp. 319-320
    • Azuaje, F.1
  • 10
    • 18244389201 scopus 로고    scopus 로고
    • Standardizing global gene expression analysis between laboratories and across platforms
    • Bammler, T., Beyer, R. P., and Bhattacharya, S. (2005). Standardizing global gene expression analysis between laboratories and across platforms. Nat. Methods, 2:351-356.
    • (2005) Nat. Methods , vol.2 , pp. 351-356
    • Bammler, T.1    Beyer, R.P.2    Bhattacharya, S.3
  • 11
    • 8844277626 scopus 로고    scopus 로고
    • Analyzing time series gene expression data
    • Bar-Joseph, Z. (2004). Analyzing time series gene expression data. Bioinformatics, 20(16):2493-2503.
    • (2004) Bioinformatics , vol.20 , Issue.16 , pp. 2493-2503
    • Bar-Joseph, Z.1
  • 12
    • 0036100113 scopus 로고    scopus 로고
    • Context-specific bayesian clustering for gene expression data
    • Barash, Y. and Friedman, N. (2002). Context-specific bayesian clustering for gene expression data. J. Comp. Biol., 9:169-191.
    • (2002) J. Comp. Biol. , vol.9 , pp. 169-191
    • Barash, Y.1    Friedman, N.2
  • 13
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Benjamini, Y. and Hochberg, Y. (1995). Controlling the false discovery rate: A practical and powerful approach to multiple testing. J. Roy. Stat. Soc, B 57:289-300.
    • (1995) J. Roy. Stat. Soc, B , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 14
    • 0035733108 scopus 로고    scopus 로고
    • The control of false discovery rate in multiple testing under dependency
    • Benjamini, Y. and Yekutieli, D. (2001). The control of false discovery rate in multiple testing under dependency. Ann. Stat., 29:153-157.
    • (2001) Ann. Stat. , vol.29 , pp. 153-157
    • Benjamini, Y.1    Yekutieli, D.2
  • 15
    • 33646825842 scopus 로고    scopus 로고
    • Estimating the number of clusters in DNA microarray data
    • Bolshakova, N. and Azuaje, F. (2006). Estimating the number of clusters in DNA microarray data. Methods Inf. Med., 45:153-157.
    • (2006) Methods Inf. Med. , vol.45 , pp. 153-157
    • Bolshakova, N.1    Azuaje, F.2
  • 16
    • 19544366640 scopus 로고    scopus 로고
    • A knowledge-driven approach to cluster validity assessment
    • Bolshakova, N., Azuaje, F., and Cunningham, P. (2005). A knowledge-driven approach to cluster validity assessment. Bioinformatics, 21(10):2546-2547.
    • (2005) Bioinformatics , vol.21 , Issue.10 , pp. 2546-2547
    • Bolshakova, N.1    Azuaje, F.2    Cunningham, P.3
  • 19
    • 0036855423 scopus 로고    scopus 로고
    • SNOMAD (Standardization and Normalization of MicroArray Data): Web-accessible gene expression data analysis
    • Colantuoni, C, Henry, C, Zeger, S., and Pevsner, J. (2002). SNOMAD (Standardization and Normalization of MicroArray Data): web-accessible gene expression data analysis. Bioinformatics, 18(11):1540-1541.
    • (2002) Bioinformatics , vol.18 , Issue.11 , pp. 1540-1541
    • Colantuoni, C.1    Henry, C.2    Zeger, S.3    Pevsner, J.4
  • 20
    • 0037342510 scopus 로고    scopus 로고
    • Comparisons and validation of statistical clustering techniques for microarray gene expression data
    • Datta, S. and Datta, S. (2003). Comparisons and validation of statistical clustering techniques for microarray gene expression data. Bioinformatics, 19(4):459-646.
    • (2003) Bioinformatics , vol.19 , Issue.4 , pp. 459-646
    • Datta, S.1    Datta, S.2
  • 22
    • 17944394324 scopus 로고    scopus 로고
    • Fuzzy C-means method for clustering microarray data
    • Dembele, D. and Kastner, P. (2003). Fuzzy C-means method for clustering microarray data. Bioinformatics, 19(8):973-980.
    • (2003) Bioinformatics , vol.19 , Issue.8 , pp. 973-980
    • Dembele, D.1    Kastner, P.2
  • 23
    • 28644449917 scopus 로고    scopus 로고
    • How does gene expression clustering work?
    • D'Haeseleer, P. (2005). How does gene expression clustering work? Nat. Biotechnol, 23:1499-1501.
    • (2005) Nat. Biotechnol , vol.23 , pp. 1499-1501
    • D'Haeseleer, P.1
  • 24
    • 0031042985 scopus 로고    scopus 로고
    • Phylogenetic reconstruction using an unsupervised growing neural network that adopts the topology of a phylogenetic tree
    • Dopazo, J. and Carazo, J. M. (1997). Phylogenetic reconstruction using an unsupervised growing neural network that adopts the topology of a phylogenetic tree. J. Mol. Evol., 44:226-233.
    • (1997) J. Mol. Evol. , vol.44 , pp. 226-233
    • Dopazo, J.1    Carazo, J.M.2
  • 25
    • 0037172724 scopus 로고    scopus 로고
    • A prediction-based resampling method for estimating the number of clusters in a dataset
    • RESEARCH0036
    • Dudoit, S. and Fridlyand, J. (2002). A prediction-based resampling method for estimating the number of clusters in a dataset. Genome Biol., 3(7):RESEARCH0036.
    • (2002) Genome Biol. , vol.3 , Issue.7
    • Dudoit, S.1    Fridlyand, J.2
  • 26
    • 0038391443 scopus 로고    scopus 로고
    • Bagging to improve the accuracy of a clustering procedure
    • Dudoit, S. and Fridlyand, J. (2003). Bagging to improve the accuracy of a clustering procedure. Bioinformatics, 19(9):1090-1099.
    • (2003) Bioinformatics , vol.19 , Issue.9 , pp. 1090-1099
    • Dudoit, S.1    Fridlyand, J.2
  • 27
    • 0032441150 scopus 로고    scopus 로고
    • Cluster analysis and display of genome-wide expression patterns
    • Eisen, M. B., Spellman, P. T., Brown, P. O., and Botstein, D. (1998). Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. USA, 95(25):14863-14868.
    • (1998) Proc. Natl. Acad. Sci. USA , vol.95 , Issue.25 , pp. 14863-14868
    • Eisen, M.B.1    Spellman, P.T.2    Brown, P.O.3    Botstein, D.4
  • 28
    • 33646344978 scopus 로고    scopus 로고
    • STEM: A tool for the analysis of short time series gene expression data
    • Ernst, J. and Bar-Joseph, Z. (2006). STEM: A tool for the analysis of short time series gene expression data. BMC Bioinformatics, 7:191.
    • (2006) BMC Bioinformatics , vol.7 , pp. 191
    • Ernst, J.1    Bar-Joseph, Z.2
  • 29
    • 28644452470 scopus 로고    scopus 로고
    • Clustering short time series gene expression data
    • Ernst, J., Nau, G. J., and Bar-Joseph, Z. (2005). Clustering short time series gene expression data. Bioinformatics, 21(1):i159-i168.
    • (2005) Bioinformatics , vol.21 , Issue.1 , pp. i159-i168
    • Ernst, J.1    Nau, G.J.2    Bar-Joseph, Z.3
  • 30
    • 0141561891 scopus 로고    scopus 로고
    • Integrating 'omic' information: A bridge between genomics and systems biology
    • Ge, H., Walhout, A. J., and Vidal, M. (2003). Integrating 'omic' information: A bridge between genomics and systems biology. Trends Genet, 19:551-560.
    • (2003) Trends Genet , vol.19 , pp. 551-560
    • Ge, H.1    Walhout, A.J.2    Vidal, M.3
  • 31
    • 28744458859 scopus 로고    scopus 로고
    • Bioconductor: Open software development for computational biology and bioinformatics
    • Gentleman, R. C., Carey, V. J., and Bates, D. M., et al. (2004). Bioconductor: Open software development for computational biology and bioinformatics. Genome Biol, 5:R80.
    • (2004) Genome Biol , vol.5 , pp. R80
    • Gentleman, R.C.1    Carey, V.J.2    Bates, D.M.3
  • 32
    • 0034710876 scopus 로고    scopus 로고
    • Coupled two-way clustering analysis of gene microarray data
    • Getz, G., Levine, E., and Domany, E. (2000). Coupled two-way clustering analysis of gene microarray data. Proc. Natl. Acad. Sci. USA, 97(22):12079-12084.
    • (2000) Proc. Natl. Acad. Sci. USA , vol.97 , Issue.22 , pp. 12079-12084
    • Getz, G.1    Levine, E.2    Domany, E.3
  • 33
    • 0036188158 scopus 로고    scopus 로고
    • Mixture modelling of gene expression data from microarray experiments
    • Ghosh, D. and Chinnaiyan, A. M. (2002). Mixture modelling of gene expression data from microarray experiments. Bioinformatics, 18(2):275-286.
    • (2002) Bioinformatics , vol.18 , Issue.2 , pp. 275-286
    • Ghosh, D.1    Chinnaiyan, A.M.2
  • 34
    • 0036798238 scopus 로고    scopus 로고
    • Judging the quality of gene expressionbased clustering methods using gene annotation
    • Gibbons, F. D. and Roth, F. P. (2002). Judging the quality of gene expressionbased clustering methods using gene annotation. Genome Res., 12:1574-1581.
    • (2002) Genome Res. , vol.12 , pp. 1574-1581
    • Gibbons, F.D.1    Roth, F.P.2
  • 36
    • 30344439849 scopus 로고    scopus 로고
    • Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity
    • Hallikas, O., Palin, K., Sinjushina, N., Rautiainen, R., Partanen, J., Ukkonen, E., and Taipale, J. (2006). Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity. Cell, 124:47-59.
    • (2006) Cell , vol.124 , pp. 47-59
    • Hallikas, O.1    Palin, K.2    Sinjushina, N.3    Rautiainen, R.4    Partanen, J.5    Ukkonen, E.6    Taipale, J.7
  • 37
    • 25144456056 scopus 로고    scopus 로고
    • Computational cluster validation in post-genomic data analysis
    • Handl, J., Knowles, J., and Kell, D. B. (2005). Computational cluster validation in post-genomic data analysis. Bioinformatics, 21(15):3201-3212.
    • (2005) Bioinformatics , vol.21 , Issue.15 , pp. 3201-3212
    • Handl, J.1    Knowles, J.2    Kell, D.B.3
  • 40
    • 0035108235 scopus 로고    scopus 로고
    • A hierarchical unsupervised growing neural network for clustering gene expression patterns
    • Herrero, J., Valencia, A., and Dopazo, J. (2001). A hierarchical unsupervised growing neural network for clustering gene expression patterns. Bioinformatics, 17(2):126-136.
    • (2001) Bioinformatics , vol.17 , Issue.2 , pp. 126-136
    • Herrero, J.1    Valencia, A.2    Dopazo, J.3
  • 42
    • 0032729435 scopus 로고    scopus 로고
    • Exploring expression data: Identification and analysis of coexpressed genes
    • Heyer, L. J., Kruglyak, S., and Yooseph, S. (1999). Exploring expression data: identification and analysis of coexpressed genes. Genome Res., 9(11):1106-1115.
    • (1999) Genome Res. , vol.9 , Issue.11 , pp. 1106-1115
    • Heyer, L.J.1    Kruglyak, S.2    Yooseph, S.3
  • 43
    • 0036138509 scopus 로고    scopus 로고
    • Statistical estimation of cluster boundaries in gene expression profile data
    • Horimoto, K. and Toh, H. (2001). Statistical estimation of cluster boundaries in gene expression profile data. Bioinformatics, 17(12):1143-1151.
    • (2001) Bioinformatics , vol.17 , Issue.12 , pp. 1143-1151
    • Horimoto, K.1    Toh, H.2
  • 44
    • 33646895693 scopus 로고    scopus 로고
    • Incorporating biological knowledge into distance-based clustering analysis of microarray gene expression data
    • in press
    • Huang, D. and Pan, W. (2006). Incorporating biological knowledge into distance-based clustering analysis of microarray gene expression data. Bioinformatics, in press.
    • (2006) Bioinformatics
    • Huang, D.1    Pan, W.2
  • 45
    • 0000412069 scopus 로고    scopus 로고
    • GEST: A gene expression search tool based on a novel Bayesian similarity metric
    • Hunter, L., Taylor, R. C., Leach, S. M., and Simon, R. (2001). GEST: A gene expression search tool based on a novel Bayesian similarity metric. Bioinformatics, Supplement, 17(1):S115-S122.
    • (2001) Bioinformatics, Supplement , vol.17 , Issue.1 , pp. S115-S122
    • Hunter, L.1    Taylor, R.C.2    Leach, S.M.3    Simon, R.4
  • 46
    • 0036699526 scopus 로고    scopus 로고
    • Revealing modular organization in the yeast transcriptional network
    • Ihmels, J., Friedlander, G., Bergmann, S., Sarig, O., Ziv, Y., and Barkai, N. (2002). Revealing modular organization in the yeast transcriptional network. Nat. Genet, 31:370-377.
    • (2002) Nat. Genet , vol.31 , pp. 370-377
    • Ihmels, J.1    Friedlander, G.2    Bergmann, S.3    Sarig, O.4    Ziv, Y.5    Barkai, N.6
  • 47
    • 31744434873 scopus 로고    scopus 로고
    • Clustering expressed genes on the basis of their association with a quantitative phenotype
    • Jia, Z. and Xu, S. (2005). Clustering expressed genes on the basis of their association with a quantitative phenotype. Genet. Res., 86:193-207.
    • (2005) Genet. Res. , vol.86 , pp. 193-207
    • Jia, Z.1    Xu, S.2
  • 49
    • 3242885824 scopus 로고    scopus 로고
    • Expression Profiler: Next generation-an online platform for analysis of microarray data
    • Kapushesky, M., Kemmeren, P., and Culhane, A. C., et al. (2004). Expression Profiler: Next generation-an online platform for analysis of microarray data. Nucleic Acids Res., 32:W465-W470.
    • (2004) Nucleic Acids Res. , vol.32 , pp. W465-W470
    • Kapushesky, M.1    Kemmeren, P.2    Culhane, A.C.3
  • 50
    • 0035979259 scopus 로고    scopus 로고
    • Bootstrapping cluster analysis: Assessing the reliability of conclusions from microarray experiments
    • Kerr, M. K. and Churchill, G. A. (2001). Bootstrapping cluster analysis: assessing the reliability of conclusions from microarray experiments. Proc. Natl. Acad. Sci. USA, 98(16):8961-8965.
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , Issue.16 , pp. 8961-8965
    • Kerr, M.K.1    Churchill, G.A.2
  • 51
    • 24644470505 scopus 로고    scopus 로고
    • Ontological analysis of gene expression data: Current tools, limitations, and open problems
    • Khatri, P. and Draghici, S. (2005). Ontological analysis of gene expression data: Current tools, limitations, and open problems. Bioinformatics, 21(18):3587-3595.
    • (2005) Bioinformatics , vol.21 , Issue.18 , pp. 3587-3595
    • Khatri, P.1    Draghici, S.2
  • 53
    • 0036808471 scopus 로고    scopus 로고
    • Spearman correlation identifies statistically significant gene expression clusters in spinal cord development and injury
    • Kotlyar, M., Fuhrman, S., Ableson, A., and Somogyi, R. (2002). Spearman correlation identifies statistically significant gene expression clusters in spinal cord development and injury. Neurochem. Res., 27:1133-1140.
    • (2002) Neurochem. Res. , vol.27 , pp. 1133-1140
    • Kotlyar, M.1    Fuhrman, S.2    Ableson, A.3    Somogyi, R.4
  • 54
    • 0036012349 scopus 로고    scopus 로고
    • Plaid models for gene expression data
    • Lazzeroni, L. and Owen, A. (2002). Plaid models for gene expression data. Statistica Sinica, 12:61-86.
    • (2002) Statistica Sinica , vol.12 , pp. 61-86
    • Lazzeroni, L.1    Owen, A.2
  • 55
    • 3042514191 scopus 로고    scopus 로고
    • Coexpression analysis of human genes across many microarray data sets
    • Lee, H. K., Hsu, A. K., Sajdak, J., Qin, J., and Pavlidis, P. (2004). Coexpression analysis of human genes across many microarray data sets. Genome Res., 14:1085-1094.
    • (2004) Genome Res. , vol.14 , pp. 1085-1094
    • Lee, H.K.1    Hsu, A.K.2    Sajdak, J.3    Qin, J.4    Pavlidis, P.5
  • 56
    • 0002975203 scopus 로고
    • On the generalized distance in statistics
    • Mahalanobis, P. (1936). On the generalized distance in statistics. Proc. Natl. Inst. Sci. India, 12:49-55.
    • (1936) Proc. Natl. Inst. Sci. India , vol.12 , pp. 49-55
    • Mahalanobis, P.1
  • 57
    • 0036203115 scopus 로고    scopus 로고
    • A mixture model-based approach to the clustering of microarray expression data
    • McLachlan, G. J., Bean, R. W., and Peel, D. (2002). A mixture model-based approach to the clustering of microarray expression data. Bioinformatics, 18(3):413-422.
    • (2002) Bioinformatics , vol.18 , Issue.3 , pp. 413-422
    • McLachlan, G.J.1    Bean, R.W.2    Peel, D.3
  • 58
    • 0001457509 scopus 로고
    • Some methods for classification and analysis of multivariate observations
    • McQueen, J. (1967). Some methods for classification and analysis of multivariate observations. Proc. 5th Berkeley Symp. Math. Stat. Prob., pages 281-297.
    • (1967) Proc. 5th Berkeley Symp. Math. Stat. Prob. , pp. 281-297
    • McQueen, J.1
  • 60
    • 0141450348 scopus 로고    scopus 로고
    • Comparison and meta-analysis of microarray data: From the bench to the computer desk
    • Moreau, Y., Aerts, S., de Moor, B., de Strooper, B., and Dabrowski, M. (2003). Comparison and meta-analysis of microarray data: From the bench to the computer desk. Trends Genet., 19:570-577.
    • (2003) Trends Genet. , vol.19 , pp. 570-577
    • Moreau, Y.1    Aerts, S.2    De Moor, B.3    De Strooper, B.4    Dabrowski, M.5
  • 61
    • 33645289673 scopus 로고    scopus 로고
    • Incorporating gene functions as priors in model-based clustering of microarray gene expression data
    • Pan, W. (2006). Incorporating gene functions as priors in model-based clustering of microarray gene expression data. Bioinformatics, 22(7):795-801.
    • (2006) Bioinformatics , vol.22 , Issue.7 , pp. 795-801
    • Pan, W.1
  • 62
    • 13044304179 scopus 로고    scopus 로고
    • Distinctive gene expression patterns in human mammary epithelial cells and breast cancers
    • Perou, CM., Jeffrey, S. S., and van de Rijn, M., et al. (1999). Distinctive gene expression patterns in human mammary epithelial cells and breast cancers. Proc. Natl. Acad. Sci. USA, 96(16):9212-9217.
    • (1999) Proc. Natl. Acad. Sci. USA , vol.96 , Issue.16 , pp. 9212-9217
    • Perou, C.M.1    Jeffrey, S.S.2    Van De Rijn, M.3
  • 63
    • 33646137384 scopus 로고    scopus 로고
    • A systematic comparison and evaluation of biclustering methods for gene expression data
    • Prelic, A., Bleuler, S., and Zimmermann, P., et al. (2006). A systematic comparison and evaluation of biclustering methods for gene expression data. Bioinformatics, 22(9):1122-1129.
    • (2006) Bioinformatics , vol.22 , Issue.9 , pp. 1122-1129
    • Prelic, A.1    Bleuler, S.2    Zimmermann, P.3
  • 64
    • 0035375137 scopus 로고    scopus 로고
    • Computational analysis of microarray data
    • Quackenbush, J. (2001). Computational analysis of microarray data. Nat. Rev. Genet, 2:418-427.
    • (2001) Nat. Rev. Genet , vol.2 , pp. 418-427
    • Quackenbush, J.1
  • 66
    • 0023453329 scopus 로고
    • Silhouettes: A graphical aid to the interpretation and validation of cluster analysis
    • Rousseeuw, P. (1987). Silhouettes: A graphical aid to the interpretation and validation of cluster analysis. J. Comput. Appl. Math., 20:53-65.
    • (1987) J. Comput. Appl. Math. , vol.20 , pp. 53-65
    • Rousseeuw, P.1
  • 67
    • 27144530248 scopus 로고    scopus 로고
    • Towards a proteome-scale map of the human protein-protein interaction network
    • Rual, J. F., Venkatesan, K., and Hao, T. (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    Venkatesan, K.2    Hao, T.3
  • 68
    • 14844282303 scopus 로고    scopus 로고
    • Central role of Ifhlp-Fhllp interaction in the synthesis of yeast ribosomal proteins
    • Rudra, D., Zhao, Y., and Warner, J. R. (2005). Central role of Ifhlp-Fhllp interaction in the synthesis of yeast ribosomal proteins. EMBO J., 24:533-542.
    • (2005) EMBO J. , vol.24 , pp. 533-542
    • Rudra, D.1    Zhao, Y.2    Warner, J.R.3
  • 69
    • 0037311919 scopus 로고    scopus 로고
    • TM4: A free, open-source system for microarray data management and analysis
    • Saeed, A. I., Sharov, V., and White, J. (2003). TM4: A free, open-source system for microarray data management and analysis. Biotechniques, 34:374-378.
    • (2003) Biotechniques , vol.34 , pp. 374-378
    • Saeed, A.I.1    Sharov, V.2    White, J.3
  • 70
    • 4944252468 scopus 로고    scopus 로고
    • Using hidden markov models to analyze gene expression time course data
    • Schliep, A., Schonhuth, A., and Steinhoff, C. (2003). Using hidden markov models to analyze gene expression time course data. Bioinformatics, Suppl., 19(1):i255-i263.
    • (2003) Bioinformatics, Suppl. , vol.19 , Issue.1 , pp. i255-i263
    • Schliep, A.1    Schonhuth, A.2    Steinhoff, C.3
  • 71
    • 4444367133 scopus 로고    scopus 로고
    • Biclustering microarray data by Gibbs sampling
    • Sheng, Q., Moreau, Y., and de Moor, B. (2003). Biclustering microarray data by Gibbs sampling. Bioinformatics, Suppl., 19(2):II196-II205.
    • (2003) Bioinformatics, Suppl. , vol.19 , Issue.2 , pp. II196-II205
    • Sheng, Q.1    Moreau, Y.2    De Moor, B.3
  • 72
    • 28644440465 scopus 로고    scopus 로고
    • Combined static and dynamic analysis for determining the quality of time-series expression profiles
    • Simon, I., Siegfried, Z., Ernst, J., and Bar-Joseph, Z. (2005). Combined static and dynamic analysis for determining the quality of time-series expression profiles. Nat. Biotechnol, 23:1503-1508.
    • (2005) Nat. Biotechnol , vol.23 , pp. 1503-1508
    • Simon, I.1    Siegfried, Z.2    Ernst, J.3    Bar-Joseph, Z.4
  • 73
    • 33644688970 scopus 로고    scopus 로고
    • Roadmap for developing and validation therapeutically relevant genomic classifiers
    • Simon, R. (2005). Roadmap for developing and validation therapeutically relevant genomic classifiers. J. Clin. One, 23(29):7332-7341.
    • (2005) J. Clin. One , vol.23 , Issue.29 , pp. 7332-7341
    • Simon, R.1
  • 74
    • 0037245343 scopus 로고    scopus 로고
    • Pitfalls in the use of DNA microarray data for diagnostic and prognostic classification
    • Simon, R., Radmacher, M. D., Dobbin, K., and McShane, L. M. (2003). Pitfalls in the use of DNA microarray data for diagnostic and prognostic classification. J. Natl. Cancer Inst, 95:14-18.
    • (2003) J. Natl. Cancer Inst , vol.95 , pp. 14-18
    • Simon, R.1    Radmacher, M.D.2    Dobbin, K.3    McShane, L.M.4
  • 75
    • 0036899286 scopus 로고    scopus 로고
    • From patterns to pathways: Gene expression data analysis comes of age
    • Slonim, D. K. (2002). From patterns to pathways: Gene expression data analysis comes of age. The Chipping Forecast II, Nat. Gen., 32:502-508.
    • (2002) The Chipping Forecast II, Nat. Gen. , vol.32 , pp. 502-508
    • Slonim, D.K.1
  • 77
    • 0031742022 scopus 로고    scopus 로고
    • Comprehensive identification of cell cycle-regulated genes of the yeast saccharomyces cerevisiae by microarray hybridization
    • Spellman, P. T., Sherlock, G., Zhang, M. Q, Iyer, V. R., Anders, K., Eisen, M. B., Brown, P. O., Botstein, D., and Futcher, B. (1998). Comprehensive identification of cell cycle-regulated genes of the yeast saccharomyces cerevisiae by microarray hybridization. Mol. Biol. Cell, 9:3273-3297.
    • (1998) Mol. Biol. Cell , vol.9 , pp. 3273-3297
    • Spellman, P.T.1    Sherlock, G.2    Zhang, M.Q.3    Iyer, V.R.4    Anders, K.5    Eisen, M.B.6    Brown, P.O.7    Botstein, D.8    Futcher, B.9
  • 78
    • 25144498379 scopus 로고    scopus 로고
    • A human protein-protein interaction network: A resource for annotating the proteome
    • Stelzl, U., Worm, U., and Lalowski, M. (2005). A human protein-protein interaction network: A resource for annotating the proteome. Cell, 122:957-968.
    • (2005) Cell , vol.122 , pp. 957-968
    • Stelzl, U.1    Worm, U.2    Lalowski, M.3
  • 79
    • 0042424602 scopus 로고    scopus 로고
    • Statistical significance for genomewide studies
    • Storey, J. D. and Tibshirani, R. (2003). Statistical significance for genomewide studies. Proc. Natl. Acad. Sci. USA, 100(16):9440-9445.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , Issue.16 , pp. 9440-9445
    • Storey, J.D.1    Tibshirani, R.2
  • 80
    • 0141993704 scopus 로고    scopus 로고
    • A gene-coexpression network for global discovery of conserved genetic modules
    • Stuart, J. M., Segal, E., Koller, D., and Kim, S. K. (2003). A gene-coexpression network for global discovery of conserved genetic modules. Science, 302:249-255.
    • (2003) Science , vol.302 , pp. 249-255
    • Stuart, J.M.1    Segal, E.2    Koller, D.3    Kim, S.K.4
  • 81
    • 27344435774 scopus 로고    scopus 로고
    • Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
    • Subramanian, A., Tamayo, P., and Mootha, V. K. (2005). Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl. Acad. Sci. USA, 102(43):15545-15550.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , Issue.43 , pp. 15545-15550
    • Subramanian, A.1    Tamayo, P.2    Mootha, V.K.3
  • 82
    • 11244306358 scopus 로고    scopus 로고
    • Discovering statistically significant biclusters in gene expression data
    • Tanay, A., Sharan, R., and Shamir, R. (2002). Discovering statistically significant biclusters in gene expression data. Bioinformatics, Suppl., 18(1):S136-S144.
    • (2002) Bioinformatics, Suppl. , vol.18 , Issue.1 , pp. S136-S144
    • Tanay, A.1    Sharan, R.2    Shamir, R.3
  • 84
    • 2942601249 scopus 로고    scopus 로고
    • Selection of informative clusters from hierarchical cluster tree with gene classes
    • Toronen, P. (2004). Selection of informative clusters from hierarchical cluster tree with gene classes. BMC Bioinformatics, 5:32.
    • (2004) BMC Bioinformatics , vol.5 , pp. 32
    • Toronen, P.1
  • 85
    • 18244409687 scopus 로고    scopus 로고
    • Gene expression profiling predicts clinical outcome of breast cancer
    • van't Veer, L. J., Dai, H., and van de Vijver, M. J., et al. (2002). Gene expression profiling predicts clinical outcome of breast cancer. Nature, 415:530-536.
    • (2002) Nature , vol.415 , pp. 530-536
    • Van't Veer, L.J.1    Dai, H.2    Van De Vijver, M.J.3
  • 86
    • 23144439117 scopus 로고    scopus 로고
    • GEPAS, an experiment-oriented pipeline for the analysis of microarray gene expression data
    • Vaquerizas, J. M., Conde, L., and Yankilevich, P., et al. (2005). GEPAS, an experiment-oriented pipeline for the analysis of microarray gene expression data. Nucleic Acids Res., 33:W616-W620.
    • (2005) Nucleic Acids Res. , vol.33 , pp. W616-W620
    • Vaquerizas, J.M.1    Conde, L.2    Yankilevich, P.3
  • 87
    • 12344334489 scopus 로고    scopus 로고
    • DNMAD: Webbased diagnosis and normalization for microarray data
    • Vaquerizas, J. M., Dopazo, J., and Diaz-Uriarte, R. (2004). DNMAD: Webbased diagnosis and normalization for microarray data. Bioinformatics, 20(18):3656-3658.
    • (2004) Bioinformatics , vol.20 , Issue.18 , pp. 3656-3658
    • Vaquerizas, J.M.1    Dopazo, J.2    Diaz-Uriarte, R.3
  • 89
    • 24144501270 scopus 로고    scopus 로고
    • Gocluster integrates statistical analysis and functional interpretation of microarray expression data
    • Wrobel, G., Chalmel, F., and Primig, M. (2005). goCluster integrates statistical analysis and functional interpretation of microarray expression data. Bioinformatics, 21(17):3575-3577.
    • (2005) Bioinformatics , vol.21 , Issue.17 , pp. 3575-3577
    • Wrobel, G.1    Chalmel, F.2    Primig, M.3
  • 90
    • 23144467675 scopus 로고    scopus 로고
    • GEMS: A web server for biclustering analysis of expression data
    • Wu, C. J. and Kasif, S. (2005). GEMS: A web server for biclustering analysis of expression data. Nucleic Acids Res., 33:W596-W599.
    • (2005) Nucleic Acids Res. , vol.33 , pp. W596-W599
    • Wu, C.J.1    Kasif, S.2
  • 91
    • 0034782618 scopus 로고    scopus 로고
    • Model-based clustering and data transformations for gene expression data
    • Yeung, K. Y., Fraley, C, Murua, A., Raftery, A. E., and Ruzzo, W. L. (2001a). Model-based clustering and data transformations for gene expression data. Bioinformatics, 17(10):977-987.
    • (2001) Bioinformatics , vol.17 , Issue.10 , pp. 977-987
    • Yeung, K.Y.1    Fraley, C.2    Murua, A.3    Raftery, A.E.4    Ruzzo, W.L.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.