Click image to enlarge.
Duan Z, Andronescu M, Schutz K, McIlwain S, Kim YJ, Lee C, Shendure J, Fields S, Blau CA, Noble WS. A three-dimensional model of the yeast genome. Nature. 2010 May 20;465(7296):363-7. Epub 2010 May 2.
Computer Cluster. Click image to enlarge.
The computational biology component of the Yeast Resource Center
develops and applies tools for both proteomics and genomics. On the
proteomics side, we have existing software infrastructure for
detection of remote protein homology
and for characterizing the
protein secondary and transmembrane structure
on the basis of the
primary amino acid sequence. We have also developed an
software toolkit for the analysis of shotgun proteomics mass
spectrometry data sets
, with application to peptide and protein
identification from complex mixtures, as well as identification of
On the genomics side, we are developing
several methods for characterizing large-scale genome structure.
These include methods that aggregate across a variety of functional
genomics data sets defined along the genome, as well as a 3C-like
assay that allows us to infer the 3D structure of the genome in the