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Daphne Koller Publications

Decomposing gene expression into cellular processes (2003)

by E. Segal, A.J. Battle, and D. Koller


Abstract: We propose a probabilistic model for cellular processes, and an algorithm for discovering them from gene expression data. A process is associated with a set of genes that participate in it; unlike clustering techniques, our model allows genes to participate in multiple processes. Each process may be active to a different degree in each experiment. The expression measurement for gene g in array a is a sum, over all processes in which g participates, of the activity levels of these processes in array a. We describe an iterative procedure, based on the EM algorithm, for decomposing the expression matrix into a given number of processes. We present results on Yeast gene expression data, which indicate that our approach identifies real biological processes.

Download Information

E. Segal, A.J. Battle, and D. Koller (2003). "Decomposing gene expression into cellular processes." Proc. Pacific Symposium on Biocomputing (PSB) (pp. 89-100). pdf ps.gz

Bibtex citation

@inproceedings{Segal+al:PSB03,
  title = {Decomposing gene expression into cellular processes}, 
  author = {E. Segal and A.J. Battle and D. Koller},
  booktitle = {Proc. Pacific Symposium on Biocomputing (PSB)}, 
  month = {January},
  year = {2003},
  editors = {R.B. Altman and A.K. Dunkner and L. Hunter and T.A. Jung and T.E. Klein},
  publisher = {World Scientific}, 
  pages = {89--100},
}

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