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arXiv · 1707.08984

Protein Lipograms

Jason Laurie·Amit K Chattopadhyay·Darren R Flower
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Abstract

Linguistic analysis of protein sequences is an underexploited technique. Here, we capitalize on the concept of the lipogram to characterize sequences at the proteome levels. A lipogram is a literary composition which omits one or more letters. A protein lipogram likewise omits one or more types of amino acid. In this article, we establish a usable terminology for the decomposition of a sequence collection in terms of the lipogram. Next, we characterize Uniref50 using a lipogram decomposition. At the global level, protein lipograms exhibit power-law properties. A clear correlation with metabolic cost is seen. Finally, we use the lipogram construction to differentiate proteomes between the four branches of the tree-of-life: archaea, bacteria, eukaryotes and viruses. We conclude from this pilot study that the lipogram demonstrates considerable potential as an additional tool for sequence analysis and proteome classification.

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BibTeXRIS

Jason Laurie, Amit K Chattopadhyay, Darren R Flower. 2017-07-25. Protein Lipograms. https://doi.org/10.1016/j.jtbi.2017.07.009

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