Vylepšené zarovnání proteinových sekvencích založené na společných částech

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216208%3A11320%2F08%3A00101243" target="_blank" >RIV/00216208:11320/08:00101243 - isvavai.cz</a>

Výsledek na webu

—

DOI - Digital Object Identifier

—

Jazyk výsledku

angličtina

Název v původním jazyce

Improved Alignment of Protein Sequences Based on Common Parts

Popis výsledku v původním jazyce

In the last twenty years, protein databases have been growing exponentially. To speed up the search, heuristic approaches have been proposed and their accuracy has been steadily growing, but exact search is still needed in some cases. The only exact search algorithm remains SSEARCH (or it?s clones) which sequentially scans database of protein sequences, and performs full alignment against each of the sequences. Due to the need of the exact search, we focus on improving the sequential search algorithm. We decrease the costs needed to compute the alignment of pair of protein sequences when used with large databases. This is achieved by reusing alignment calculations of common parts of the sequences without loss of accuracy. With this method, we reduced the computational costs by up to 20 % depending on the database size and subset used. We also implemented approximate search which further reduced computational costs for the the sake of some accuracy loss.

Název v anglickém jazyce

Improved Alignment of Protein Sequences Based on Common Parts

Popis výsledku anglicky

In the last twenty years, protein databases have been growing exponentially. To speed up the search, heuristic approaches have been proposed and their accuracy has been steadily growing, but exact search is still needed in some cases. The only exact search algorithm remains SSEARCH (or it?s clones) which sequentially scans database of protein sequences, and performs full alignment against each of the sequences. Due to the need of the exact search, we focus on improving the sequential search algorithm. We decrease the costs needed to compute the alignment of pair of protein sequences when used with large databases. This is achieved by reusing alignment calculations of common parts of the sequences without loss of accuracy. With this method, we reduced the computational costs by up to 20 % depending on the database size and subset used. We also implemented approximate search which further reduced computational costs for the the sake of some accuracy loss.

Druh

D - Stať ve sborníku

CEP obor

JC - Počítačový hardware a software

OECD FORD obor

—

Projekt

—

Návaznosti

Z - Vyzkumny zamer (s odkazem do CEZ)

Rok uplatnění

2008

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název statě ve sborníku

ISBRA 2008: Bioinformatics Research and Applications

ISBN

978-3-540-79449-3

ISSN

—

e-ISSN

—

Počet stran výsledku

13

Strana od-do

—

Název nakladatele

Springer

Místo vydání

—

Místo konání akce

Neuveden

Datum konání akce

1. 1. 2008

Typ akce podle státní příslušnosti

WRD - Celosvětová akce

Kód UT WoS článku

000255941000008