Discovery and Analysis of Cancer-specific and tissue-specific Natural Antisense Transcripts

• Main Authors: Meng-chin Lee, 李孟晉
• Other Authors: Fang-rong Hsu
• Format: Others
• Language: en_US
• Published: 2006
• Online Access: http://ndltd.ncl.edu.tw/handle/90658009086402286880

碩士 === 逢甲大學 === 資訊工程所 === 94 === Natural antisense transcripts (NATs) are RNAs containing two or more complementary transcriptions. Transcript at the same genome locus are called cis-NAT； Transcript at different genome locus are called trans-NAT. NATs may cause RNA masking, RNA editing, RNA interference, alternative splicing and translational regulation amongst other effects. In recent years, NATs have been researched, and have been found gradually. There are ~2500 mammalian NATs that have been found recently but because the researches of NATs are just beginning, there should be a lot of novel NATs that have not been discovered. In this research, first we use bioinformatics approach to detect NATs of six organisms. Also, we further detect human tissue-specific NATs and human cancer-specific NATs. We identified 16,710 human NATs and 11,996 non-exon overlap bi-directional clusters (NOB). In these NATs, we found that the longest overlapping length is 352,960bp, and the lengths of most NATs are 0 to 1000 bp. In tissue-specific natural antisense transcripts, there are 7,617 NATs whose |LOD| (Log odd ratio) bigger than 2 and 4,093 NATs whose |LOD| bigger than 3. In cancer-specific natural antisense transcripts, there are 1,664 NATs whose |LOD| bigger than 2 and 749 NATs whose |LOD| bigger than 3; in cancer-specific of natural antisense transcripts in particular tissue, the number of |LOD| bigger than 2 is 1,473 and the number of |LOD| bigger than 3 is 637. We also found 2,334 mouse NATs, 1,167 rat NATs, 239 fruit fly NATs, 391 nematode NATs and 272 thale cress NATs.