Some domain families of similar function have expanded more than others during evolution. Different domain families might have significantly different constraints imposed by their fold that could explain these differences. This project aims to understand what properties determine these differences focusing in particular on peptide binding domains. Examples of constraints to explore include average cost of production or capacity to generate binding diversity for the domain family.
This project is also a test for using Google Code as a research project management system for open science (see here for project home). Wiki pages will be used to collect previous research and milestone discoveries during the project development and to write the final manuscript towards the end of the project. Issue tracking system can be used to organize the required project tasks and assign them to participants. The file repository can hold the datasets and code used to derive any result. 
I plan to use the blog as a notebook for the project (tag: domainevolution) and the project home at Google Code as the repository and organization center. The next few post regarding the project will be dedicated to explain better why I am interested in the question and develop further what are some of my expectations. Anyone interested in contributing is more than welcome to join in along the way. I should say that I am not in any hurry and that this is something for my 20% time ;).
Wednesday, December 05, 2007
Open Science project on domain family expansion
Posted by Pedro Beltrão at 1:22 AM
Labels: domainevolution, evolution, open science, original research
6 comments:
Absolutely brilliant idea and in a field that interests me a lot. I'll be keeping an eye on this and thinking of ways to contribute.
agree, very interesting project.
I am also interested in domain evolution, but more focused on DNA-binding domains.
Will keep an eye on your project.
Very cool! Good idea to use Google Code for this purpose, too.
I like the use of Google code, from what I've seen previously very good for managing software projects. As you wrote, hopefully this will also be applicable for research projects too.
Hi Pedro, great to see you giving this a test as an Open Notebook system. It looks like it could be a good system. I have trouble understanding how to navigate subversion (not being a programmer) but I can see the value in the functionality
It does not solve the problem of making the results more machine readable directly. One possible solution would be to host the results in an online structured repository like freebase.
Post a Comment