It's important for gene expression. For example, if I wanted to get precise gene expression, I would have to filter through a library of RBSs ( https://www.denovodna.com/software/ ). A more recent example was structure analysis they used to tether the 2 subunits of the e coli ribosome together, coupling RBS initiation and the peptidyl transferase centre for *true orthogonal proteins* ( http://www.ncbi.nlm.nih.gov/pubmed/26222032 ). I have also used it when I need to fuse an active RNA to a protein coding sequence and I don't want structural interference. I use it both very often at an academic lab and at a DIYbio lab.
(and Mega couldn't you hypothetically just do this with an HSV ribozyme and the normal CRISPR repeats? )
On Monday, August 10, 2015 at 2:37:16 PM UTC-7, Michael Flynn wrote:
-- Anyway, I would say the most useful thing for me would be an open source RBS calculator and secondary structure prediction program I could just run on my computer. (I'm not so enthusiastic about all these web server things). These have probably been done (first one has if I ever get around to getting it to work) but that's what would be most helpful for me.
-Koeng
(and Mega couldn't you hypothetically just do this with an HSV ribozyme and the normal CRISPR repeats? )
On Monday, August 10, 2015 at 2:37:16 PM UTC-7, Michael Flynn wrote:
Hi all,I recently wrote my undergraduate thesis on RNA secondary structure prediction algorithms. In the process I've become intimately familiar with the algorithms and code bases behind Unafold and RNAstructure, which I have been told comprise 90% of the market share of RNA structure prediction software. My thesis is located here, if you are interested.However, I was a physics and computer science student, and I have minimal (no) training in biology. This meant that most of the time while I was writing my thesis I was in great want of background knowledge and motivation. I was often asked why my research was important, but I could never give a strong answer. When I asked my advisor for motivations behind our work, he did not answer to my satisfaction. So I thought, what better way to learn than DIYbio?So are there ways I could help this community? What would be the best path for me to get started, in a way that my background would be the most relevant?Mike
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