Daphne Koller

Papers

Daphne Koller Publications

GeneXPress: A Visualization and Statistical Analysis Tool for Gene Expression and Sequence Data (2004)

by E. Segal, R. Yelensky, A. Kaushal, T. Pham, A. Regev, D. Koller, and N. Friedman

Abstract: Many algorithms have been developed for analyzing gene expression and sequence data. However, to extract biological understanding, scientists often have to perform further time consuming post-processing on the output of these algorithms. In this paper, we present GeneXPress, a tool designed to facilitate the assginment of biological meaning to gene expression patterns by automating this post processing stage. Within a few simple steps that take at most several minutes, a user of GeneXPress can: identify the biological processes represented by each cluster; identify the DNA binding sites that are unique to the genes in each cluster; and examine multiple visualizations of the expression and sequence data. GeneXPress thus allows the researcher to quickly identify potentially new biological discoveries. GeneXPress is available for download at http://GeneXPress.stanford.edu.

Download Information

E. Segal, R. Yelensky, A. Kaushal, T. Pham, A. Regev, D. Koller, and N. Friedman (2004). "GeneXPress: A Visualization and Statistical Analysis Tool for Gene Expression and Sequence Data." Proceedings of the 11th International Conference on Intelligent Systems for Molecular Biology (ISMB).

Bibtex citation

@inproceedings{Segal+al:ISMB04,
  title = {{GeneXPress}: {A} Visualization and Statistical Analysis Tool for
                  Gene Expression and Sequence Data},
  author = {E. Segal and R. Yelensky and A. Kaushal and T. Pham and A. Regev
                  and D. Koller and N. Friedman},
  booktitle = {Proceedings of the 11th International Conference on Intelligent
                  Systems for Molecular Biology (ISMB)},
  year = 2004,
}

full list