Instruct: Identify the main and secondary category of Arxiv papers based on the titles and abstracts
Query: Evolution of Protein Interaction Networks by Whole Genome Duplication
  and Domain Shuffling   Successive whole genome duplications have recently been firmly established in
all major eukaryote kingdoms. It is not clear, however, how such dramatic
evolutionary process has contributed to shape the large scale topology of
protein-protein interaction (PPI) networks. We propose and analytically solve a
generic model of PPI network evolution under successive whole genome
duplications. This demonstrates that the observed scale-free degree
distributions and conserved multi-protein complexes may have concomitantly
arised from i) intrinsic exponential dynamics of PPI network evolution and ii)
asymmetric divergence of gene duplicates. This requirement of asymmetric
divergence is in fact "spontaneously" fulfilled at the level of protein-binding
domains. In addition, domain shuffling of multi-domain proteins is shown to
provide a powerful combinatorial source of PPI network innovation, while
preserving essential structures of the underlying single-domain interaction
network. Finally, large scale features of PPI networks reflecting the
"combinatorial logic" behind direct and indirect protein interactions are well
reproduced numerically with only two adjusted parameters of clear biological
significance.

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The categories of this paper are: q-alg
33
The categories of this paper are: plasm-ph
22
The categories of this paper are: chao-dyn
11
The categories of this paper are: hep-lat
17
The categories of this paper are: q-fin
8
The categories of this paper are: hep-ex
32
The categories of this paper are: atom-ph
12
The categories of this paper are: nucl-th
1
The categories of this paper are: cs
9
The categories of this paper are: nlin
21
The categories of this paper are: adap-org
18
The categories of this paper are: econ
26
The categories of this paper are: bayes-an
5
The categories of this paper are: gr-qc
13
The categories of this paper are: quant-ph
31
The categories of this paper are: ao-sci