Point matching under non-uniform distortions and protein side chain packing based on an efficient maximum clique algorithm.
Bahadur K C Dukka, Tatsuya Akutsu, Etsuji Tomita, Tomokazu Seki, Asao Fujiyama · PubMed · 2002
We developed maximum clique-based algorithms for spot matching for two-dimensional gel electrophoresis images, protein structure alignment and protein side-chain packing, where these problems are known to be NP-hard. Algorithms based on direct reductions to the maximum clique can find optimal solutions for instances of size (the number of points or residues) up to 50-150 using a standard PC. We also developed pre-processing techniques to reduce the sizes of graphs. Combined with some heuristics, many realistic instances can be solved approximately.