There are two types of interaction classifications used to describe Protein-protein interactions, namely physical and functional. Whilst physical interactions are obvious in nature and methodological determination, I was wondering what a functional interaction/linkage refers to, such as the one cited in the below paper, and is it purely inferred from genomic data?

"Visualization and interpretation of protein networks in Mycobacterium tuberculosis based on hierarchical clustering of genome-wide functional linkage maps."

  • $\begingroup$ did it!!!!!!!!! $\endgroup$ – girl101 Mar 13 '15 at 9:56
  • $\begingroup$ It would be great if you show some of your workings! A simple google search would have provided you with your answer! I don't think the question should have been closed so once it opens I will answer it but please show what information you have found so far! $\endgroup$ – Behzad Rowshanravan Mar 14 '15 at 17:32
  • $\begingroup$ okay this is what I got to know, multiple proteins working together to attain a particular function can be termed as protein functional linkages. Am I correct? $\endgroup$ – girl101 Mar 17 '15 at 7:46

Genome wide functional linkages refers to protein in a biochemical or signalling pathway. Inferences of functional interactions can be obtained from methods such as coexpression data from microarray analysis. Since experimental detection of genome-wide protein–protein interactions is costly and time-consuming a computational scope for essentially predictive genome-wide protein–protein interactions is created [1], which is what the above paper is referring to. As obvious from the abstract of the paper, there are many ways of obtaining the linkages, which are often inferred by the Rosetta Stone, Phylogenetic Profile, Operon and Conserved Gene Neighbor computational methods [2].

Algorithms that identify genome-wide interactions between proteins mainly focus on coregulation of interacting proteins. These methods assume that the genes that are coregulated often occur close to each other on the genomes and show conserved gene order. Thus the genes, which are part of an operon, could be functionally linked.

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