Organism specific blast web-based search engine a framework of nucleotide similarity analysis

Po Yuan Chen, Mien De Jhuo, Mei Chih Lai, Jaung Geng Lin, Yueh Hsiung Kuo, Cheng Shang Kao, Tzu Ching Shih, Chieh Hsi Wu

Research output: Contribution to journalArticlepeer-review


The gene sequences BLAST and its alignment is the common and important step in biological discovery. Basically speaking, BLAST technique is already a mature and well-known to biological scientists, but aiming at specific organisms is seldom seen in world-wide databases. In this study, we develop a web-based organism specific BLAST search engine to replenish researchers' use. This study constructed a web service, the Organism Specific Search Engine, for taxonomy scientists and all users concerned. This service provides most common specific organism BLAST, scoring system and GUI (Graphical User Interface) for users. On the other hand, researchers can clearly and concisely get the results from E-mail service in order to avoid waiting for a long time. The Organism Specific Search Engine evaluate the similarities between two or more nucleotide or protein sequences against a specific organism, which can help researchers realize the differences between one chosen organism rapidly. Users can apply this information more easily and directly than taking from NCBI or other famous database system. Furthermore, this system will update its database from NCBI website automatically, which can catch up its new and correct databases. Notably, the website is freely available at.

Original languageEnglish
Pages (from-to)47-52
Number of pages6
JournalBiomedical Engineering - Applications, Basis and Communications
Issue number1
Publication statusPublished - Feb 2010
Externally publishedYes


  • BLAST engine
  • GUI
  • NCBI

ASJC Scopus subject areas

  • Biophysics
  • Bioengineering
  • Biomedical Engineering


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