Design of Protein-Protein Interactions with a Novel Ensemble-Based
Scoring Algorithm.
Kyle E. Roberts, Patrick R. Cushing, Prisca Boisguerin, Dean R. Madden
and Bruce R. Donald.
* K*, Protein design, Bruce Donald, Flexible rotamer backbone
* http://ftp.cs.duke.edu/~kroberts/latexProjects/Recomb2011/Final/recomb_calwriteup1.pdf
* http://www.cs.duke.edu/donaldlab/osprey.php
* NSRP - They are synthesized in many bacteria and fungi by large multifunctional proteins called nonribosomal peptide synthetases (NRPS). A unique feature of NRPS system is the ability to synthesize peptides containing proteinogenic as well as non-proteinogenic amino acids. http://linux1.nii.res.in/~zeeshan/nrps.html
* DEE is a provable algorithm, does not produce gaps
* Game theory (minimax) - positive and negative designs
Experiment Specific Expression Patterns.
Tobias Petri, Robert Küffner and Ralf Zimmer.
* Look for genes that deviates from the model 'unexpected genes'
* http://compbio.cs.sfu.ca/recomb2011/recomb2011_submission_249.pdf
* http://www.springerlink.com/content/h725542467jv537j/
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