Abstract
Recent genome-wide analysis of alternative splicing indicate that 40–60% of human genes have alternative splice forms, suggesting that alternative splicing is one of the most significant components of the functional complexity of the human genome. Avatar (A value added transcriptome database) identified 174,546 alternative splicing events coverage of Homo sapiens through an analysis of large scale ESTs. And Single nucleotide polymorphisms (SNPs) are the most abundant form of human genetic variation. The refSNP (reference SNP) of dbSNP contained a total of 9,098,790 refSNPs information. The large volume of data produced by highthroughput sequencing projects is a rich and large source of SNPs and alternative splicing. The study of alternative splicing has long been a valuable subfield of molecular biology, can promote the proceeding of molecular biologic studies. We analyze more than 100,000 alternative splicing events from Avatar, producing 15,228 candidate SNPs that probable have relation between SNP and alternative splicing. We use Fisher’s exact test to confirm the result and find 1,122 significant SNPs. Further we analyze the sequence in the area that near the alternative splicing event related SNP. We find some consensus sequences in the area, which may related to alternative splicing events.
Original language | English |
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Title of host publication | 3rd Kuala Lumpur International Conference on Biomedical Engineering 2006 |
Editors | Fatimah Ibrahim, Noor Azuan Abu Osman, Juliana Usman, Nahrizul Adib Kadri |
Publisher | Springer Verlag |
Pages | 524-527 |
Number of pages | 4 |
ISBN (Electronic) | 9783540680161 |
DOIs | |
State | Published - 2007 |
Externally published | Yes |
Event | 3rd Kuala Lumpur International Conference on Biomedical Engineering, Biomed 2006 - Kuala Lumpur, Malaysia Duration: 11 12 2006 → 14 12 2006 |
Publication series
Name | IFMBE Proceedings |
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Volume | 15 |
ISSN (Print) | 1680-0737 |
ISSN (Electronic) | 1433-9277 |
Conference
Conference | 3rd Kuala Lumpur International Conference on Biomedical Engineering, Biomed 2006 |
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Country/Territory | Malaysia |
City | Kuala Lumpur |
Period | 11/12/06 → 14/12/06 |
Bibliographical note
Publisher Copyright:© Springer-Verlag Berlin Heidelberg 2007.
Keywords
- Alternative Splicing
- Bioinformatics
- Single nucleotide polymorphisms