History corner the history of the cluster heat map

American Statistician

Volumn 63, Issue 2, 2009, Pages 179-184

  Wilkinson, Leland ^a   Friendly, Michael ^b  

^a SYSTAT Inc   (United States)

^b YORK UNIVERSITY   (Canada)

Author keywords

Cluster analysis; Heatmap; Microarray; Visualization

Indexed keywords

EID: 67449163824     PISSN: 00031305     EISSN: None     Source Type: Journal    
DOI: 10.1198/tas.2009.0033     Document Type: Review

References (43)

1. Andrade, M. (2008), "Heatmap," available at http://en.wikipedia.org/.
2. Andrich, D. (1978), "A Rating Formulation for Ordered Response Categories," Psychometrika, 43, 357-374.
3. Bar-joseph, Z., Demaine, E. D., Gifford, D. K., Hamel, A. M., Jaakkola, T. S., and Srebro, N. (2003), "K-Ary Clustering With Optimal Leaf Ordering for Gene Expression Data," Bioinformatics, 19, 506-520.
4. Bertin, J. (1967), Sèmiologie Graphique, Paris: Editions Gauthier Villars.
5. Brinton, W. C. (1914), Graphic Methods for Presenting Facts, New York: The Engineering Magazine Company.
6. Chen, C. H. (2002), "Generalized Association Plots: Information Visualization via Iteratively Generated Correlation Matrices," Statistica Sinica, 12, 7-29.
7. Climer, S., and Zhang, W. (2006), "Rearrangement Clustering: Pitfalls, Remedies, and Applications," Journal of Machine Learning Research, 7, 919-943.
8. Czekanowski, J. (1909), "Zur differentialdiagnose der Neandertalgruppe," Korrespondenzblatt der Deutschen Gesellschaft für Anthropologie, Ethnologie und Urgeschichte, 40, 44-47.
9. Eisen, M., Spellman, P., Brown, P., and Botstein, D. (1998), "Cluster Analysis and Display of Genome-Wide Expression Pattern," Proceedings of the National Academy of Sciences, 95, 14863-14868.
10. Friendly, M. (2002), "Corrgrams: Exploratory Displays for Correlation Matrices," The American Statistician, 56, 316-324.
11. Friendly, M., and Kwan, E. (2003), "Effect Ordering for Data Displays," Computational Statistics and Data Analysis, 43, 509-539.
12. Gale, N., Halperin, W., and Costanzo, C. (1984), "Unclassed Matrix Shading and Optimal Ordering in Hierarchical Cluster Analysis," Journal of Classification, 1, 75-92.
13. Goodman, L. (1975), "A New Model for Scaling Response Patterns: An Application of the Quasi-Independence Concept," Journal of the American Statistical Association, 70, 755-768.
14. Gower, J., and Digby, P. (1981), "Expressing Complex Relationships in Two Dimensions," in Interpreting Multivariate Data, ed. V. Barnett, Chichester, U. K.: Wiley, pp. 83-118.
15. Gruvaeus, G., and Wainer, H. (1972), "Two Additions to Hierarchical Cluster Analysis," British Journal of Mathematical and Statistical Psychology, 25, 200-206.
16. Guttman, L. (1950), "The Basis for Scalogram Analysis," in Measurement and Prediction. The American Soldier, Vol. IV, eds. S. A. Stouffer et al., New York: Wiley.
17. Hage, P., and Harary, F. (1995), "Close-Proximity Analysis: Another Variation on the Minimum-Spanning-Tree Problem," Current Anthropology, 36, 677-683.
18. Hartigan, J. (1974), "BMDP3M: Block Clustering," in BMDP Biomedical Computer Programs, ed. W. Dixon, Berkeley, CA: University of California Press.
19. - (1975), Clustering Algorithms, New York: Wiley.
20. Hubert, L. (1974), "Some Applications of Graph Theory and Related Non- Metric Techniques to Problems of Approximate Seriation: The Case for Symmetric Proximity Measures," The British Journal of Mathematical and Statistical Psychology, 27, 133-153.
21. - (1976), "Seriation Using Asymmetric Proximity Measures," The British Journal of Mathematical and Statistical Psychology, 29, 32-52.
22. Kendall, D. (1963), "A Statistical Approach to Flinders Petries Sequence Dating," Bulletin of the International Statistical Institute, 40, 657-680.
23. Kettenring, J. (2006), "The Practice of Cluster Analysis," Journal of Classification, 23, 3-30.
24. Lenstra, J. (1974), "Clustering a Data Array and the Traveling Salesman Problem," Operations Research, 22, 413-414.
25. Liiv, I. (2008), "Pattern Discovery Using Seriation and Matrix Reordering: A Unified View," Ph. D. thesis, Tallinn University of Technology, Department of Informatics, Tallinn, Estonia.
26. Ling, R. (1973), "A Computer Generated Aid for Cluster Analysis," Communications of the ACM, 16, 355-361.
27. Liu, L., Hawkins, D., Ghosh, S., and Young, S. (2003), "Robust Singular Value Decomposition Analysis of Microarray Data," Proceedings of the National Academy of Sciences, 100, 13167-13172.
28. Loua, T. (1873), Atlas statistique de la population de Paris, Paris: J. Dejey.
29. McCormick, W. T., Schweitzer, P. J., and White, T. W. (1972), "Problem Decomposition and Data Reorganization by a Clustering Technique," Operations Research, 20, 993-1009.
30. Morris, S. A., Asnake, B., and Yen, G. G. (2003), "Dendrogram Seriation Using Simulated Annealing," Information Visualization, 2, 95-104.
31. Nie, N. H., Bent, D. H., and Hull, C. H. (1970), SPSS: Statistical Package for the Social Sciences, New York, NY: McGraw-Hill.
32. Petrie, W. (1899), "Sequences in Prehistoric Remains," The Journal of the Anthropological Institute of Great Britain and Ireland, 29, 295-301.
33. PNAS (2008), "Most-Cited Articles as of July 1, 2008-Updated Monthly," available at http://www.pnas.org/reports/most-cited.
34. Robinson, W. (1951), "A Method for Chronologically Ordering Archaeological Deposits," American Antiquity, 16, 293-301.
35. Rondinelli, D. A. (1980), Spatial Analysis for Regional Development, Tokyo, Japan: The United Nations University.
36. Siirtola, H., and Mäkinen, E. (2005), "Constructing and Reconstructing the Reorderable Matrix," Information Visualization, 4, 32-48.
37. Sneath, P. (1957), "The Application of Computers to Taxonomy," Journal of General Microbiology, 17, 201-226.
38. Weinstein, J. (2008), "A Postgenomic Visual Icon," Science, 319, 1772-1773.
39. Wilkinson, L. (1979), "Permuting a Matrix to a Simple Pattern," in Proceedings of the Statistical Computing Section of the American Statistical Association, Washington, DC: American Statistical Association, pp. 409-412.
40. - (1984), SYSTAT, Version 2, Evanston, IL: SYSTAT Inc.
41. - (1994), SYSTAT for DOS: Advanced Applications, Version 6, Evanston, IL: SYSTAT Inc.
42. - (2005), The Grammar of Graphics (2nd ed.), New York: Springer- Verlag.
43. Wishart, D. (1997), "ClustanGraphics: Interactive Graphics for Cluster Analysis," Computing Science and Statistics, 29, 48-51.