The Design and Implementation of an Alternative Splicing Database

• Main Authors: Yi-ping Wang, 王義評
• Other Authors: F. R. Hsu
• Format: Others
• Language: en_US
• Published: 2006
• Online Access: http://ndltd.ncl.edu.tw/handle/65943048209010209654

碩士 === 逢甲大學 === 資訊工程所 === 94 === Alternative splicing is an important regulatory mechanism of gene expression in eukaryotic cells. It can increase the diversity of the proteins from the same gene, and variant splice isoforms are often specific to different stages of development. However, we still know less about the complete mechanisms in the transcriptome level. But now, because of the fast increasing of the amount of ESTs, we can systematically identify the alternative splicing events to help the biologists to do more deeply researches. Alternative splicing databases are powerful tools to systematically collect, annotate, store and provide the alternative splicing information. However, each alternative splicing database almost has its own alignment methods and criteria to filter out the alignment results. This reason results into that the alternative splicing events among distinct databases are almost different. For the reason, we build a new alternative splicing database to address the problem by composing three different alignment tools. In the new database, we not only address the defect but also integrate some other research achievements (such as cross-species conservation) into the new database, offer more visualized display for six kinds of alternative splicing events and the annotation of the tissue annotated in the ESTs for each alternative splicing event, and detect the NMD-related alternative splicing events. The new alternative database was built upon the latest version genome and ESTs from the NCBI in May 2006 A.D... Keywords: alternative splicing, gene expression, transcriptome.