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Significant speedup of database searches with HMMs by search space reduction with PSSM family models
2009
Computer applications in the biosciences : CABIOS
Motivation: Profile hidden Markov models (pHMMs) are currently the most popular modeling concept for protein families. They provide sensitive family descriptors, and sequence database searching with pHMMs has become a standard task in today's genome annotation pipelines. On the downside, searching with pHMMs is computationally expensive. Results: We propose a new method for efficient protein family classification and for speeding up database searches with pHMMs as is necessary for large-scale
doi:10.1093/bioinformatics/btp593
pmid:19828575
pmcid:PMC2788931
fatcat:ezmxd7rorzgk5boa23ofjlpzba