Research Materials Online

Here you will find pointers to technical reports, journal supplements, and other research materials from the UW CSE Computational Molecular Biology Group.

Technical Reports

Note: some of the following links point not to the tech reports themselves but rather to individual researchers' pages that contain them.

UW-CSE-00-01-01: K.Y. Yeung, D.R. Haynor, and W.L. Ruzzo. "Validating Clustering for Gene Expression Data" (January 2000).
UW-CSE-00-08-05: J. Buhler, T. Ideker, and D.R. Haynor. "Dapple: Improved Techniques for Finding Spots on DNA Microarrays" (August 2000).
UW-CSE-00-11-01: K.Y. Yeung, M. T. Barrett, J. Delrow, P. L. Blount, L. Hsu, W.L. Ruzzo, B. J. Reid and P. S. Rabinovitch. "Expression analysis of Barrett's epithelium and normal gastrointestinal tissues" (November 2000).
UW-CSE-00-11-03: K.Y. Yeung, and W.L. Ruzzo. "An empirical study on principal component analysis for clustering gene expression data" (November 2000).
UW-CSE-01-04-02: K.Y. Yeung, C. Fraley, A. Murua, A.E. Raftery and W.L. Ruzzo. "Model-Based Clustering and Data Transformations for Gene Expression Data" (April 2001).

Journal and Conference Supplements

Z. Weinberg and W.L. Ruzzo. "Exploiting conserved structure for faster annotation of non-coding RNAs without loss of accuracy" (ISMB 2004 and Bioinformatics)
Z. Weinberg and W.L. Ruzzo. "Faster genome annotation of non-coding RNA families without loss of accuracy" (RECOMB 2004)
J. Buhler. "Efficient Large-Scale Sequence Comparison by Locality-Sensitive Hashing". (Bioinformatics, 2001).
K.Y. Yeung, D.R. Haynor, and W.L. Ruzzo. "Validating Clustering for Gene Expression Data". (Bioinformatics 2001, volume 17, number 4, pages 309-318).
K.Y. Yeung, and W.L. Ruzzo. "Principal Component Analysis for Clustering Gene Expression Data". (Bioinformatics 2001, volume 17, number 9, pages 763-774).
K.Y. Yeung, C. Fraley, A. Murua, A.E. Raftery, and W.L. Ruzzo. "Model-based Clustering and Data Transformations for Gene Expression Data". (To appear in Bioinformatics in conjunction with the 3rd Georgia Tech-Emory International Conference on Bioinformatics).

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