M-tree: An Efficient Access Method for Similarity Search in Metric Spaces
VLDB '97 Proceedings of the 23rd International Conference on Very Large Data Bases
Unified framework for fast exact and approximate search in dissimilarity spaces
ACM Transactions on Database Systems (TODS)
NM-Tree: Flexible Approximate Similarity Search in Metric and Non-metric Spaces
DEXA '08 Proceedings of the 19th international conference on Database and Expert Systems Applications
Improving the similarity search of tandem mass spectra using metric access methods
Proceedings of the Third International Conference on SImilarity Search and APplications
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We have generalized a method for tandem mass spectra interpretation, based on the parameterized Hausdorff distance dHP. Instead of just peptides (short pieces of proteins), in this paper we describe the interpretation of whole protein sequences. For this purpose, we employ the recently introduced NM-tree to index the database of hypothetical mass spectra for exact or fast approximate search. The NM-tree combines the M-tree with the TriGen algorithm in a way that allows to dynamically control the retrieval precision at query time. A scheme for protein sequences identification using the NM-tree is proposed.