BROWSE

Related Researcher

Author's Photo

Bhak, Jong
KOrean GenomIcs Center(KOGIC)
Research Interests
  • Geromics, genomics, bioinformatics, protein Engineering, OMICS

ITEM VIEW & DOWNLOAD

Sequence search algorithm assessment and testing toolkit (SAT)

Cited 7 times inthomson ciCited 7 times inthomson ci
Title
Sequence search algorithm assessment and testing toolkit (SAT)
Other Titles
Sequence search algorithm assessment and testing toolkit (SAT).
Author
Bhak, Jong HwaHolm, LiisaChothia, Cyrus
Keywords
HIDDEN MARKOV-MODELS; PROTEIN DATABASE; ALIGNMENT
Issue Date
2000-02
Publisher
OXFORD UNIV PRESS
Citation
BIOINFORMATICS, v.16, no.2, pp.104 - 110
Abstract
Motivation: The Sequence Search Algorithm Assessment and Testing Toolkit (SAT) aims to be a complete package for the comparison of different protein homology search algorithms. The structural classification of proteins can provide us with a clear criterion for judgement in homology detection. There have been several assessments based on structural sequences with classifications but a good deal of similar work is now being repented with locally developed procedures and programs. The SAT will provide developers with a complete package which will save time and produce more comparable performance assessments for search algorithms. The package is complete in the sense that it provides a non-redundant large sequence resource database, a well-characterized query database of proteins domains, all the parsers and some previous results from PSI-BLAST and a hidden markov model algorithm. Results: An analysis on two different data sets was carried out using the SAT package. It compared rite performance of a full protein sequence database (RSDB100) with a non-redundant representative sequence database derived from it (RSDB50). The performance measurement indicated that the full database is sub-optimal for a homology search. This result justifies the use of much smaller and faster RSDB50 than RSDB100 for the SAT
URI
Go to Link
DOI
10.1093/bioinformatics/16.2.104
ISSN
1367-4803
Appears in Collections:
BME_Journal Papers
Files in This Item:
Bioinformatics-2000-Park-104-10.pdf Download

find_unist can give you direct access to the published full text of this article. (UNISTARs only)

Show full item record

qrcode

  • mendeley

    citeulike

Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.

MENU