Biological Pathway Extension Using Microarray Gene Expression Data |
Chung, Tae-Su
(Seoul National University Biomedical Informatics (SNUBI), Seoul National University College of Medicine)
Kim, Ji-Hun (Seoul National University Biomedical Informatics (SNUBI), Seoul National University College of Medicine) Kim, Kee-Won (Seoul National University Biomedical Informatics (SNUBI), Seoul National University College of Medicine) Kim, Ju-Han (Seoul National University Biomedical Informatics (SNUBI), Seoul National University College of Medicine) |
1 | Iyer, V.R., Eisen, M.B., Ross, D.T., Schuler, G., Moore, T., Lee, J.C., Trent, J.M., Staudt, L.M., Hudson, J. Jr., Boguski, M.S., Lashkari, D., Shalon, D., Botstein, D., and Brown, P.O. (1999). The transcriptional program in the response of human fibroblasts to serum. Science 283, 83-87 DOI ScienceOn |
2 | Kharchenko, P., Vitkuo, D., and Church, G.M. (2004). Filling gaps in a metabolic networks using expression information. Bioinformatics 20 (Suppl. 1), i178-i185 DOI ScienceOn |
3 | Hughes, T.R., Marton, M.J., Jones, A.R., Roberts, C.J., Stoughton, R., Armour, C.D., Bennett, H.A., Coffey, E., Dai, H., He, Y.D., Kidd, M.J., King, A.M., Meyer, M.R., Slade, D., Lum, P.Y., Stepaniants, S.B., Shoemarker, D.D., Gachotte, D., Chakraburtty, K., Simon, J., Bard, M., and Friend, S.H. (2000). Functional discovery via a compendium of expression profiles. Cell 102, 109-126 DOI ScienceOn |
4 | Yamanishi, Y., Vert, J.P., Nakaya, A., and Kanehisa, M. (2004). Protein network inference from multiple genomic data: a supervised approach. Bioinformatics 20 (Supple. 1), i363-i370 DOI ScienceOn |
5 | Friedman, N., Linial, M., Nachman, I., and Pe'er, D. (2000). Using Bayesian Network to Analyze Expression Data. Journal of Computational Biology 7, 601-620 DOI ScienceOn |
6 | Dudoit, S., Yang, Y.H., Gallow, M.J., and Speed, T.P. (2002). Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments. Statistica Sinica. 12, 111-139 |
7 | Chartrand, G., Kubicki, G., and Schultz, M. (1988). Graph similarity and distance in graphs. Aequationes Math. 55, 129-145 DOI |
8 | Tusher, V.G., Tibshirani, R., and Chu, G. (2001). Significance analysis of microarrays applied to the ionizing radiation response. Proc. Natl. Acad. Sci. USA. 98, 5116-5121 DOI ScienceOn |
9 | Kanehisa, M. (1996). Toward pathway engineering: a new database of genetic and molecular pathways. Science & Technology Japan 59, 34-38 |
10 | eong, H., Mason, S.P., Barabasi, A.L., and Oltvai, Z.N. (2001). Lethality and centrality in protein networks. Nature 6833, 41-2 |
11 | Bogatti, S.P., and Everett, M.G. (1997). Network analysis of 2-mode data. Social Networks 19, 243-269 DOI ScienceOn |
12 | Faust, K. (1997). Centrality in affiliation networks. Social Networks 19, 157-191 DOI ScienceOn |