Tuesday, 28th October 2008
Simulating a protein gel
I have started a simulation of a protein gel. As it runs, a blue bar of protein moves down the gel, getting increasingly diffuse - a little too diffuse at the moment. And the bar eventually disappears, which is annoying. Still, it's a start, and the program is all nice and object oriented. I just need to work out a better equation for simulating the movement of proteins in a gel. After that: more proteins in more lanes with different percentage gels and different colours (makes it less realistic, but more fun). Also, some lateral diffusion might be nice, but could make things unnecessarily computationally complex.
I have also started to reread Barbieri's The Organic Codes: An Introduction to Semantic Biology. I seem to recall that it has a lot of interesting ideas, even if they are presented as being more revolutionary than I think they are. Maybe I just haven't seen their full implications. Nonetheless, I think it will be useful to read while I try to simulate life.