Topographic independent component analysis of gene expression time series data

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Volumn 3889 LNCS, Issue , 2006, Pages 462-469

  Kim, Sookjeong ^a   Choi, Seungjin ^a  

^a Pohang University of Science and Technology (POSTECH)   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

APPROXIMATION THEORY; DECOMPOSITION; GENETIC ENGINEERING; INDEPENDENT COMPONENT ANALYSIS;

GENE EXPRESSIONS; INDEPENDENT SUBSPACE ANALYSIS (ISA); LINEAR DECOMPOSITION; TIME SERIES DATA; TOPOGRAPHIC INDEPENDENT COMPONENT ANALYSIS (TICA);

BIOMEDICAL ENGINEERING;

EID: 33745711515     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/11679363_58     Document Type: Conference Paper

References (18)

1. Raychaudhuri, S., Stuart, J.M., Altman, R.B.: Principal components analysis to summarize microarray experiments: Application to sporulation time series. In: Proc. Pacific Symp. Biocomputing. (2000) 452-463
2. Girolami, M., Breitling, R.: Biologically valid linear factor models of gene expression. Bioinformatics 20 (2004) 3021-3033
3. Hori, G., Inoue, M., Nishimura, S., Nakahara, H.: Blind gene classification based on ICA of microarray data. In: Proc. ICA, San Diego, California (2001)
4. Liebermeister, W.: Linear modes of gene expression determined by independent component analysis. Bioinformatics 18 (2002) 51-60
5. Kim, H., Choi, S., Bang, S.Y.: Membership scoring via independent feature subspace analysis for grouping co-expressed genes. In: Proc. Int'l Joint Conf. Neural Networks, Portland, Oregon (2003)
6. Kim, H., Choi, S.: Independent subspaces of gene expression data. In: Proc. IASTED Int'l Conf. Artificial Intelligence and Applications, Innsbruck, Austria (2005)
7. Lee, S., Batzoglou, S.: ICA-based clustering of genes from microarray expression data. In: Advances in Neural Information Processing Systems. Volume 16., MIT Press (2004)
8. Kim, S., Choi, S.: Independent arrays or independent time courese for gene expression data. In: Proc. IEEE Int'l Symp. Circuits and Systems, Kobe, Japan (2005)
9. Hyvärinen, A., Hoyer, P.O.: Emergence of phase and shift invarianct features by decomposition of natural images into independent feature subspaces. Neural Computation 12 (2000) 1705-1720
10. Hyvärinen, A., Hoyer, P., Inki, M.: Topographic independent component analysis. Neural Computation 13 (2001) 1525-1558
11. Cardoso, J.F.: Multidimensional independent component analysis. In: Proc. ICASSP, Seattle, WA (1998)
12. Cho, R.J., Campbell, M.J., Winzeler, E.A., Steinmetz, L., Conway, A., Wodicka, L., Wolfsberg, T.G., Gabrielian, A.E., Landsman, D., Lcokhart, D.J., Davis, R.W.: A genome-wide transcriptional analysis of the mitotic cell cycle. Mol. Cell 2 (1998) 65-73
13. Spellman, P.T., Sherlock, G., Zhang, M.Q., Iyer, V.R., Anders, K., Eisen, M.B., Brown, P.O., Botstein, D., Putcher, B.: Comprehensive identification of cell cycleregulated genes of the yeast saccharomyces cerevisiae by microarray hybridization. Molecular Biology of the Cell 9 (1998) 3273-3297
14. Chu, S., DeRisi, J., Eisen, M., Mulholland, J., Botstein, D., Brown, P.O., Herskowitz, I.: The transcriptional program of sporulation in budding yeast. Science 282 (1998) 699-705
15. Minka, T.P.: Automatic choice of dimensionality for PCA. In: Advances in Neural Information Processing Systems. Volume 13., MIT Press (2001)
16. Troyanskaya, O., Cantor, M., Sherlock, G., Brown, P., Hastie, T., Tibshirani, R., Botstein, D., Altman, R.B.: Missing value estimation methods for DNA microarrays. Bioinformatics 17 (2001) 520-525
17. Gene Ontology Consortium: Creating the gene ontology resource: Design and implementation. Genome Research 11 (2001) 1425-1433
18. Tavazoie, S., Hughes, J.D., Campbell, M.J., Cho, R.J., Church, G.M.: Systematic determination of genetic network architecture. Nature Genetics 22 (1999) 281-285