
Biostatistics Section Workshop
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Using Bioconductor for High Throughput Data
by Robert Gentleman and members from his group at the Fred Hutchinson Cancer Research Center Herbold Computational Biology Program.
Update (May 20): The Biostatistics Section Workshop is now FULL. Thus, no on-site registration will be available in Vancouv er on May 31.
This workshop will be comprised of two different topics and participants will be required to bring their laptops with R and Bioconductor loaded on them (further details will be emailed to participants). Enrollment is limited for this hands-on workshop.
Morning Abstract
We will consider the two basic approaches used to find functional
groupings of genes. One approach relies on the identification of
differentially expressed genes followed by the use of
Hypergeometric tests to identify over-representation of different
groups. The second approach is called Gene Set Enrichment
Analysis (GSEA) and it uses all genes (after some basic
filtering) and regression-like analysis to identify predefined
sets of genes whose members show a systematic variation from the
expected behavior.
Afternoon Abstract
We will provide a brief introduction to data from ultra-high throughput sequencing technologies (Solexa, 454, Solid). Basics of quality assessment will be covered. An introduction to the identification of transcription factor binding sites (via ChIP-seq) will be given. Some basics of representation, interactions with genome browsers will also be covered.
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