@conference{KWK09,
author = {Eagu Kim, Travis Wheeler, and John Kececioglu},
title = {Learning models for aligning protein sequences with predicted secondary structure},
booktitle = {Proceedings of the 13th Conference on Research in Computational Molecular Biology},
pages = {512--531},
editor = {S. Batzoglou}
publisher = {Springer-Verlag Lecture Notes in Bioinformatics 5541},
year = {2009},
key = {sequence alignment, protein secondary structure, inverse parametric alignment, substitution score matrices, affine gap penalties}
}