On 2014 Feb 24, Eugene Koonin commented:

A very interesting paper beyond doubt, demonstrating specific role of codon bias in translation regulation. The following previous publications provide complementary insights into the regulatory effects of codon usage: http://www.ncbi.nlm.nih.gov/pubmed/20403328 http://www.ncbi.nlm.nih.gov/pubmed/24012761

On 2014 Feb 04, Tobias von der Haar commented:

That's interesting - you analysed rare codon clusters as a function of the protein motif, which would be related to folding. There is also evidence that rare codons are over-represented in low-expressed proteins, which could be related to the control mechanism we describe Neafsey DE, 2007. One might also expect rare codons to be over-represented near the 5'-end of messages (where they would exert control without significant ribosome queueing), but I don't think anyone has looked for this yet.

On 2014 Feb 03, Rafael Najmanovich commented:

We have recently performed a large scale analysis of evolutionarily conserved rare codon clusters in protein families that may be of interest for readers of this paper: Chartier M, 2012.

On 2014 Feb 03, Rafael Najmanovich commented:

We have recently performed a large scale analysis of evolutionarily conserved rare codon clusters in protein families that may be of interest for readers of this paper: Chartier M, 2012.

On 2014 Feb 24, Eugene Koonin commented:

A very interesting paper beyond doubt, demonstrating specific role of codon bias in translation regulation. The following previous publications provide complementary insights into the regulatory effects of codon usage: http://www.ncbi.nlm.nih.gov/pubmed/20403328 http://www.ncbi.nlm.nih.gov/pubmed/24012761