179 citations · 315 across the 6 of their papers we have counts for
6 papers
RLE Plots: Visualising Unwanted Variation in High Dimensional Data
Luke C. Gandolfo, Terence P. Speed
Unwanted variation can be highly problematic and so its detection is often crucial. Relative log expression (RLE) plots are a powerful tool for visualising such variation in high d…
Correcting gene expression data when neither the unwanted variation nor the factor of interest are observed
Laurent Jacob, Johann Gagnon-Bartsch, Terence P. Speed
When dealing with large scale gene expression studies, observations are commonly contaminated by unwanted variation factors such as platforms or batches. Not taking this unwanted v…
Transcription factor binding site prediction with multivariate gene expression data
Nancy R. Zhang, Mary C. Wildermuth, Terence P. Speed
Multi-sample microarray experiments have become a standard experimental method for studying biological systems. A frequent goal in such studies is to unravel the regulatory relatio…
Quality assessment for short oligonucleotide microarray data
Julia Brettschneider, Francois Collin, Benjamin M. Bolstad +1
Quality of microarray gene expression data has emerged as a new research topic. As in other areas, microarray quality is assessed by comparing suitable numerical summaries across m…
A multivariate empirical Bayes statistic for replicated microarray time course data
Yu Chuan Tai, Terence P. Speed
In this paper we derive one- and two-sample multivariate empirical Bayes statistics (the -statistics) to rank genes in order of interest from longitudinal replicated d…
Biological sequence analysis
T. P. Speed
This talk will review a little over a decade's research on applying certain stochastic models to biological sequence analysis. The models themselves have a longer history, going ba…