\HeaderA{YEASTENZYME}{Mappings between probe identifiers and the enzyme commission
numbers, to which the products of the genes represented by the probe
ids correspond}{YEASTENZYME}
\keyword{datasets}{YEASTENZYME}
\begin{Description}\relax
Genes code for proteins/enzymes that take part in various
biological processes. YEASTENZYME maps probe ids to Enzyme
Commission numbers for the enzymes the genes represented by the probe
ids code for. Enzyme Commission numbers are assigned by the
Nomenclature Committee of the International Union of Biochemistry and
Molecular Biology \url{http://www.chem.qmw.ac.uk/iubmb/enzyme/} to
allow enzymes to be identified.
\end{Description}
\begin{Details}\relax
Each probe id is mapped to one or more Enzyme Commission numbers. An
Enzyme Commission number is of the format EC x.y.z.w, where x, y, z,
and w are numeric numbers. In YEASTENZYME, EC is dropped from the
Enzyme Commission numbers.

Enzyme Commission numbers have corresponding names that describe the
functions of enzymes in such a way that EC x is a more general
description than EC x.y that in turn is a more general description than
EC x.y.z. The top level EC numbers and names are listed below:

EC 1 oxidoreductases

EC 2 transferases

EC 3 hydrolases

EC 4 lyases

EC 5 isomerases

EC 6 ligases

YEASTENZYME only provides mappings to EC numbers. The EC name for
a given EC number can be viewed at
\url{http://www.chem.qmul.ac.uk/iupac/jcbn/index.html#6} 

Mappings between probe ids and enzyme ids were obtained using files
provided by:

KEGG:\url{ftp://ftp.genome.ad.jp/pub/kegg/pathways}. Built: Yeast Genome data are built at various time  intervals. Sources used were downloaded  Fri Jan  7 14:56:44 2005 


Yeast Genome:\url{http://www.yeastgenome.org/DownloadContents.shtml}. Built: Yeast Genome data are built at various time  intervals. Sources used were downloaded  Fri Jan  7 14:56:40 2005 


Package built Fri Jan  7 16:12:38 2005
\end{Details}
\begin{References}\relax
\url{ftp://ftp.genome.ad.jp/pub/kegg/pathways}
\end{References}
\begin{Examples}
\begin{ExampleCode}
        # Convert to a list
        xx <- as.list(YEASTENZYME)
        # Remove probe ids that do not map to any enzyme EC number
        xx <- xx[!is.na(xx)]
        if(length(xx) > 0){
        # Gets the enzyme commission numbers for the first five
        #probes
        xx[1:5]
        # Get the first one
        xx[[1]]
}
\end{ExampleCode}
\end{Examples}

