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BITS2007 Meeting
BITS2007 Meeting



26-28 April 2007 Napoli, Italy

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Evolutive constraints for "wiring" and characterizing human subproteomes
 
Motivation
Interest in the "proteome wiring" of model organisms has been 
motivation to numerous
large scale efforts to map protein-protein interactions. However, it 
is unclear if the
integration of existing experimental and computational protein 
interaction maps into one
"unique hypothetical and averaged" human interactome can be of 
biological relevance. The
two main concerns are data quality, which remains to be critically 
assessed, but more
importantly, the existing variety of tissue and temporally specific 
interactomes in
human, also referred to as subinteractomes.
Here, we focus on the attempt to wire well studied decomposable 
proteomes or
subproteomes, which underly different biological processes, by using 
biologically
relevant predictors in a statistical modeling framework. Particular 
attention is given to
the evaluation of the impact that evolutionary constraints have 
posed on interacting
proteins in the different subinteractomes.


Methods
Based on the assumption that interacting pairs of proteins should 
co-evolve to maintain
functional and structural complementarity, we set up predictors 
based on the correlation
between the similarity of the phylogenetic trees, and on the 
co-occurrence of specific
domains of interacting proteins.
We employed data sets from manually curated databases and text 
mining approaches as
goldstandard references in the context of statistical 
modeling-machine learning
frameworks.


Results
Preliminary results indicate that the evolutionary constraints 
operating on the
interacting proteins specifically characterize the different 
subinteractomes. For
example, the SH2/SH3-ome and other domain-specific 
subinteractomes, the plasma
proteome, show different degree of co-evolution. As a consequence, 
the predictive
power of the descriptors based on the evolutionary constraints 
shows biological
context dependence.
 
Id: 221
Place: Napoli, Italy
Centro Congressi "Federico II"
Via Partenope 36
Napoli
Starting date:
-- not yet scheduled --   
Duration: 01h00'
Contribution type: Poster
Primary Authors: PERSICO, Maria (CRS4 bioinformatics laboratory, Parco Tecnologico Sardegna Ricerche, Pula (CA))
Co-Authors: CAPOBIANCO, Enrico (CRS4 bioinformatics laboratory, Parco Tecnologico Sardegna Ricerche, Pula (CA))
Presenters: PERSICO, Maria
 
Included in session: Poster Session
Included in track: Gene expression and system biology
 




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