A new projection method for biological semantic map generation

References

[1] Bishop, C.M., Svens'en, M. and Williams, C.K.I. (1998) GTM: the generative topographic mapping, Neural Computation, 10, 215-234.

[2]
Lesteven, K. (1995) Multivariate data analysis applied to bibliographical information retrieval: SIMBAD quality control. Vistas in Astronomy, 39, 187-193.

[3]
Kaski, S. (1998) Dimensionality reduction by random mapping: Fast similarity computation for clustering, Proceedings of IJCNN'98, International Joint Conference on Neural Networks, IEEE Service Center, 413-418.

[4]
Lagus, K., Kaski, S. and Kohonen, T. (2004) Mining massive document collections by the WEBSOM method. Information Sciences, 163, 135-156.

[5]
Chen, C. (2005) CiteSpace II: Detecting and visualizing emerging trends and transient patterns in scientific literature. Journal of the American Society for Information Science, 57, 359-377.

[6]
Grimmelstein, M. and Urfer, W.W. (2005) Analyzing protein data with the generative topographic mapping approach. innovations in classification, data science, and information systems, Baier, D. and Wernecke, K.D. Springer Berlin Heidelberg, 585-592.

[7]
Ossorio, P.G, (1966) Classification space: a multivariate procedure for automated document indexing and retrieval. Multivariate Behavioral Research, 1, 479-524.

[8]
Deerwester, S., Dumais, S.T., Furnas, G.W., Landauer, T. K. and Harshman R. (1990) Indexing by latent semantic indexing. Journal of the American Society for Information Science, 41, 391-407.

[9]
Kohonen, T. (1997) Self-Organizating Maps, Springer- Verlag.

[10]
Kohonen, T. (1982) Analysis of a simple self-organizing process. Biological Cybernetics, 44, 135-140.

[11]
Dempster, A., Laird, N. and Rubin, D. (1977) Maximum likelihood from incomplete data via the {EM} algorithm. Journal of the Royal Statistical Society, Ser. B, 39, 249-282.

[12]
Flexer, A. (1997) Limitations of self-organizing maps for vector quantization and multi-dimensional scaling. Advances in neural information processing systems, 9, 445-451.

[13]
Sammon J.W. (1969) A non-linear mapping for data structure analysis. IEEE Transactions on Computers, 18, 401-409.

[14]
Bishop, C.M. and James G.D. (1993) Analysis of multiphase flows using dual-energy gamma densitometry and neural networks. Nuclear Instruments and Methods in Physics Research, Section A, 327, 580-593.

[15]
Nguyen, H., Berthommier, G., Friedrich, A., Poidevin, L., Ripp, R., Moulinier, L. and Poch, O. (2008) Introduction to the new Decrypthon Data Center for biomedical data, Proc CORIA', 32-44.

[16]
BIRDQL-Wikili, http://alnitak.u-strasbg.fr/wikili/index.php/BIRDQL.

[17]
Décrypthon: le grid-computing au service de la génomique et la protéomique. http://www.decrypthon.fr.
(2008) The uniProt consortium. The Universal Protein Resource (UniProt). Nucleic Acids Research, 36, D190- D195.

[18]
Titterington, D., Smith, A. and Makov, U. (1985) Statistical analysis of finite mixture distribution, John Wiley and Sons.

[19]
McLachlan, G. and Basford, K. (1988) Mixture models: inference and applications to clustering, Marcel Dekker.

[20]
Banfield, J. and Raftery, A. (1993) Model-based Gaussian and non-Gaussian clustering. Biometrics, 49, 803-821.

[21]
Celeux, G. and Govaert, G. (1992) A classification EM algorithm for clustering and two stochastic versions, Journal of Computational Statistics and Data Analysis, 14, 315-332.

[22]
Mardia, K.V., Kent, J.T. and Bibby, J.M. (1979) Multivariate Analysis, Academic Press.

[23]
Parzen, E., (1962) On estimation of a probability density function and mode. Annals of Mathematical Statistics, 33, 1065-1076.

[24]
Hayashi, M., Imanaka-Yoshida, K., Yoshida, T., Wood, M., Fearns, C., Tatake, R. and Lee, J. (2006) A crucial role of mitochondrial Hsp40 in preventing dilated cardiomyopathy, Nature Medecine, 12, 128-132.

[25]
Laguna, M. and Marti, R. (2005) Experimental testing of advanced scatter search designs for global optimization of multimodal functions, Journal of Global Optimization 33, 235-255.

[26]
Neumaier, A., Shcherbina, O., Huyer, W. and Vinko, T. (2005) A comparison of complete global optimization solvers, Mathematical Programming, 103, 335-356.