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Current Result Document :
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´ÙÀ½°Ç
ÇѱÛÁ¦¸ñ(Korean Title)
¿Ã¸®°í´ºÅ¬·¹¿ÀŸÀ̵å Á¦ÀÛÀ» À§ÇØ È¿À²ÀûÀÌ°í Â÷º°ÀûÀÎ ½Ãµå¸¦ °í¸£´Â ¹æ¹ý¿¡ ´ëÇÑ °íÂû
¿µ¹®Á¦¸ñ(English Title)
A Study of Choosing Efficient Discriminative Seeds for Oligonucleotide Design
ÀúÀÚ(Author)
Á¤¿øÇü
¹Ú¼º¹è
Wonhyong Chung
Seongbae Park
¿ø¹®¼ö·Ïó(Citation)
VOL 36 NO. 01 PP. 0001 ~ 0008 (2009. 02)
Çѱ۳»¿ë
(Korean Abstract)
»ý¹°Á¤º¸ºÐ¾ß¿¡¼ ¿Ã¸®°í´ºÅ¬·¹¿ÀŸÀ̵å(oligonucleotide)¸¦ Á¦ÀÛÇÏ´Â ¹®Á¦´Â ½Ã°£À» ¸¹ÀÌ ¼Ò¸ðÇÏ´Â ¹®Á¦ÀÌ´Ù. ÀÌ ¹®Á¦¸¦ ÇØ°áÇϱâ À§ÇÏ¿© Çؽø¦ ÀÌ¿ëÇÑ °¡¼Ó°è»êÀÌ ÁÖ·Î ¾²ÀÌ°í ÀÖ°í BLAST¶õ ÇÁ·Î±×·¥ÀÌ ´ëÇ¥ÀûÀ¸·Î »ý¹°Á¤º¸ºÐ¾ß¿¡¼ »ç¿ëµÇ°í ÀÖ´Ù. BLAST·ùÀÇ ÇÁ·Î±×·¥µéÀº DNA¼¿ÀÇ Æ¯¼º¿¡ µû¶ó ½Ãµå¸¦ º¯ÇüÇÏ¿© Çؽø¦ °³¼±ÇÏ´Â ¾Ë°í¸®ÁòÀ» Àû¿ëÇÏ¿© ¼¿°£ÀÇ À¯»çµµ°¡ ³ôÀº ºÎºÐÀ» ã´Â´Ù. ±×·¯³ª ÀÌ ÇÁ·Î±×·¥µéÀº ¿ø·¡ ¿Ã¸®°í´ºÅ¬·¹¿ÀŸÀ̵å Á¦ÀÛÀ» À§Çؼ°¡ ¾Æ´Ñ Áö¿ªÁ¤·Ä ¹®Á¦¸¦ ÇØ°áÇϱâ À§ÇÑ ¹æ¹ýµé·Î½á ¹ßÀüÇÏ¿© ¿ÔÀ¸¹Ç·Î º» ¹®Á¦¿¡ È¿À²ÀûÀΰ¡¿¡ ´ëÇÑ °ËÁõÀÌ ¾ÆÁ÷±îÁö ÀÌ·ç¾îÁöÁö ¾Ê¾Ò´Ù. ¿ì¸®´Â BLAST·ùÀÇ ÇÁ·Î±×·¥¿¡¼ »ç¿ëµÈ ½Ãµå(seed)µéÀÌ ¿Ã¸®°í´ºÅ¬·¹¿ÀŸÀ̵å Á¦ÀÛ¿¡ È¿°úÀûÀΰ¡¸¦ ÆÇ´ÜÇÒ ¼ö ÀÖ´Â È¿À²ÀûÀÌ°í Â÷º°ÀûÀÎ Àã´ë¸¦ Á¦½ÃÇÏ°í ÀÌ¿¡ µû¶ó ´Ù¼¸ Á¾·ùÀÇ ´ëÇ¥ÀûÀÎ ½Ãµå¸¦ Æò°¡ÇÏ¿´´Ù. Æò°¡¿¡¼ spaced seed¶ó´Â ½Ãµå°¡ °¡Àå ÁÁÀº °á°ú¸¦ º¸ÀÓÀ» Á¤·®ÀûÀ¸·Î °è»êÇÒ ¼ö ÀÖ¾ú´Ù.
¿µ¹®³»¿ë
(English Abstract)
Oligonucleotide design is known as a time-consuming work in Bioinformatics. In order to accelerate the oligonucleotide design process, one of the most widely used approaches is the prescreening unreliable regions using hashing(or seeding) method represented by BLAST. Since the seeding is originally proposed to increase the sensitivity for local alignment, the specificity should be considered as well as the sensitivity for the oligonucleotide design problem. However, a measure of evaluating the seeds regarding how adequate and efficient they are in the oligo design is not yet proposed. we propose a novel measure of evaluating the seeding algorithms based on the discriminability and the efficiency. By the proposed measure, five well-known seeding algorithms are examined. The spaced seed is recorded as the best efficient discriminative seed for oligo design.
Å°¿öµå(Keyword)
¿Ã¸®°í´ºÅ¬·¹¿ÀŸÀ̵å
oligonucleotide
ÇÁ·Îºê
probe
ÇؽÃ
hash
½Ãµå
seed
»ý¹°Á¤º¸
ºí¶ó½ºÆ®
bioinformatics
BLAST
ÆÄÀÏ÷ºÎ
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