Year: 2000
Type: article
Abstract: We provide a detailed overview of the choices inherent in performing a sequence database search, including the choice of algorithm, substitution matrix and gap model. Each of these choices has implications that can be described as restrictions on the underlying model of sequence evolution, the expected degree of divergence between the query sequence and the database sequences (if one uses an evolutionary based matrix), as well as the sensitivity and selectivity of the search. We conclude with a series of recommendations for researchers performing these searches based on our experience and literature studies.
Source: BioTechniques
DOI: 10.2144/00286bc01
Institution: Pittsburgh Supercomputing Center
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: gold
Estimated APC paid: $1,415
OpenAlex ID: W80997463