Question: What Are Some Examples Of Large Networks Arising In Biology Where Motifs Play A Role?
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gravatar for Douglas S. Stones
8.9 years ago by
Melbourne, Australia
Douglas S. Stones260 wrote:

There seems to be some claims that biologists are interested in finding network motifs (i.e. subgraphs) that occur more often than expected in large networks -- thus suggesting a demand for software packages such as FANMOD, which finds (or estimates) the number of times each non-isomorphic subgraph on n vertices appears in a given network.

Question: What are some examples of where large networks arise in biological systems and where motifs play a role (or are suspected to play a role)?

If possible, I would also like to be able to access these networks directly (i.e. download them) and test them myself.

network motif graph • 1.6k views
ADD COMMENTlink modified 5.9 years ago by Biostar ♦♦ 20 • written 8.9 years ago by Douglas S. Stones260

Stay tuned for a paper by Shane Neph on this subject.

ADD REPLYlink written 5.9 years ago by Alex Reynolds29k
5
gravatar for Giovanni M Dall'Olio
8.9 years ago by
London, UK
Giovanni M Dall'Olio26k wrote:

You'll probably want to have a look at Uri Alon's work, who is the author of the theory of network motifs, which is basically what you are referring to in your question.

Uri studied the structure of the yeast's gene regulatory network and postulated that it can be decomposed into a set of motifs, some of which are more frequent than others. I recommend you to look at his homepage (there you will find some downloadable datasets) and his books.

ADD COMMENTlink written 8.9 years ago by Giovanni M Dall'Olio26k
4

This paper is also relevant.

ADD REPLYlink modified 9 weeks ago by RamRS24k • written 8.9 years ago by Istvan Albert ♦♦ 81k

Thanks, I found a few things there I can take a look through.

ADD REPLYlink written 8.9 years ago by Douglas S. Stones260
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