Saturday, October 18, 2008

Evolving Proteomics Through Simulated Evolution - UPDATED




Excellent post by our blog friend Martin Pelikan, see it here.

It deals with the use of a genetic algorithm to select a subset of conformations explaining the experimental scattering profile best.

Despite choosing geophysics as my grad school career, I consider proteomics a big deal and it would worth a lot investing time and dedication pursuing a career in that field.

It would be interesting if Martin told us what kind of genetic algorithm he applied (EDA or classical ones).

------------------------------------------------------------

Martin Pelikan explained the evolutionary algorithm they used for evolving protein conformations:


"[...]The genetic algorithm we used is similar to a simple GA, but slightly crossed over with UMDA. We started with this simple method inspired by some prior work in this area and since the method worked, we used it. We tested it on artificially created examples and it worked great, and it gave reasonable results also for the real-world cases. More should be published soon, I hope."


------------------------------------------------------------

Thank you very much, Martin! I hope you achieve great results!

Labels: , , , , , , , , ,

2 Comments:

Anonymous Martin Pelikan said...

Thanks for the post. The genetic algorithm we used is similar to a simple GA, but slightly crossed over with UMDA. We started with this simple method inspired by some prior work in this area and since the method worked, we used it. We tested it on artificially created examples and it worked great, and it gave reasonable results also for the real-world cases. More should be published soon, I hope.

18 October, 2008 01:54  
Blogger Marcelo said...

Hi, Martin!

Thank you very much for the explanation.

Interesting you hybridization between SGA and UMDA. I thought you had used only the SGA approach.

All good luck during your simulations and I hope you achieve great results!

Cheers.

Marcelo

18 October, 2008 08:58  

Post a Comment

Links to this post:

Create a Link

<< Home

Charles Darwin Has A Posse Check Google Page Rank