I was wondering if you could help me.
I read your interesting article " The Importance of Bottlenecks in
Protein Networks: Correlation with Gene Essentiality and Expression
I have trouble understanding the definition of hubs and bottlenecks (We
defined hubs as all proteins that are in the top 20% of the degree
distribution (i.e., proteins that have the 20% highest number of neighbors).
Accordingly, we defined
bottlenecks as the proteins that are in the top 20% in terms of
For example: if we want to calculate proteins that are in top 10% of degree
distributions, in a PPI network with 1000 nodes, we consider 100 highest
we calculate 10% of the highest degree, which is for example 700 and
proteins with degree above 630 are the hubs?
Which one of these interpretations are correct?
Your first interpretation is correct, i.e., if there are 1000 proteins in the network, we consider the top 100 proteins with the highest degrees.