AUTOMAT AND BLAST - COMPARISON OF 2 PROTEIN-SEQUENCE SIMILARITY SEARCH PROGRAMS

Authors
CANTALLOUBE H LABESSE G CHOMILIER J NAHUM C CHO YY CHAMS V ACHOUR A LACHGAR A MBIKA JP ISSING W MORNON JP BIZZINI B ZAGURY D ZAGURY JF
Citation
H. Cantalloube et al., AUTOMAT AND BLAST - COMPARISON OF 2 PROTEIN-SEQUENCE SIMILARITY SEARCH PROGRAMS, Computer applications in the biosciences, 11(3), 1995, pp. 261-272
Citations number
20
Categorie Soggetti
Mathematical Methods, Biology & Medicine","Computer Sciences, Special Topics","Computer Science Interdisciplinary Applications","Biology Miscellaneous
Journal title
Computer applications in the biosciences → ACNP
ISSN journal
02667061
Volume
11
Issue
3
Year of publication
1995
Pages
261 - 272
Database
ISI
SICI code
0266-7061(1995)11:3<261:AAB-CO>2.0.ZU;2-5
Abstract
Since the early 1980s, protein/DNA sequence similarity search has beco me of major importance to biologists, and the need for fast mid effici ent tools grows with the size of databanks. Two programs use the strat egy of finite state deterministic automatons to accomplish these searc hes. One of these two is BLAST, which is now widely used, and the othe r Automat, which has just been published. The differences and similari ties in their basic principles, their use and their performances are a nalysed in this paper in order to allow optimal use of these important softwares.