Subject: | OMICS and OMES |
Presenter: | Viann Chan |
Paper: | " Interrelating different types of genomic data, from proteome to secretome: 'oming in on function. " |
  | by Greenbaum D, Luscombe NM, Jansen R, Qian J, and Gerstein M. |
Abstract |
Interrelating different types of genomic data, from proteome to secretome:
'oming in on function.
With the completion of genome sequences, the current challenge for biology
is to determine the functions of all gene products and to understand how
they contribute in making an organism viable. For the first time,
biological systems can be viewed as being finite, with a limited set of
molecular parts. However, the full range of biological processes
controlled by these parts is extremely complex. Thus, a key approach in
genomic research is to divide the cellular contents into distinct
sub-populations, which are often given an "-omic" term. For example, the
proteome is the full complement of proteins encoded by the genome, and the
secretome is the part of it secreted from the cell. Carrying this further,
we suggest the term "translatome" to describe the members of the proteome
weighted by their abundance, and the "functome" to describe all the
functions carried out by these. Once the individual sub-populations are
defined and analyzed, we can then try to reconstruct the full organism by
interrelating them, eventually allowing for a full and dynamic view of the
cell. All this is, of course, made possible because of the increasing
amount of large-scale data resulting from functional genomics experiments.
However, there are still many difficulties resulting from the noisiness
and complexity of the information. To some degree, these can be overcome
through averaging with broad proteomic categories such as those implicit
in functional and structural classifications. For illustration, we discuss
one example in detail, interrelating transcript and cellular protein
populations (transcriptome and translatome). Further information is
available at http://bioinfo.mbb.yale.edu/what-is-it.
Reference:
Greenbaum D, Luscombe NM, Jansen R, Qian J, Gerstein M.
(2001.) Interrelating different types of genomic data, from
proteome to secretome: 'oming in on function. Genome Res. 2001
Sep; 11(9): 1463-8.
The paper is available at http://www.genome.org/cgi/reprint/11/9/1463.pdf
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