A computational investigation of kinetoplastid trans-splicing

被引：0
作者：
Shuba Gopal
Saria Awadalla
Terry Gaasterland
George AM Cross
机构：
[1] Rockefeller University,Laboratory of Computational Genomics
[2] Rochester Institute of Technology,Department of Biological Sciences
[3] Rockefeller University,Laboratory of Molecular Parasitology
来源：
Genome Biology | / 6卷
关键词：
Splice Site; Linear Discriminant Analysis; Additional Data File; Splice Junction; Splice Acceptor Site;
D O I：
暂无
中图分类号：
学科分类号：
摘要：
Trans-splicing is an unusual process in which two separate RNA strands are spliced together to yield a mature mRNA. We present a novel computational approach which has an overall accuracy of 82% and can predict 92% of known trans-splicing sites. We have applied our method to chromosomes 1 and 3 of Leishmania major, with high-confidence predictions for 85% and 88% of annotated genes respectively. We suggest some extensions of our method to other systems.
引用
收藏
相关论文
共 137 条
[1]  
Hastings KE(2005)SL Trends Genet 21 240-247
[2]  
Burge C(1997)-splicing: easy come or easy go? J Mol Biol 268 78-94
[3]  
Karlin S(1996)Prediction of complete gene structures in human genomic DNA. Comput Chem 20 103-118
[4]  
Fickett J(1997)The gene identification problem: an overview for developers. Proc Natl Acad Sci USA 94 565-568
[5]  
Zhang MQ(2003)Identification of protein coding regions in the human genome by quadratic discriminant analysis. Eukaryot Cell 2 830-840
[6]  
Liang Xh(2000) and Proc Natl Acad Sci USA 97 8967-8972
[7]  
Haritan A(2002)splicing in trypanosomatids: mechanism, factors, and regulation. Nature 417 851-854
[8]  
Uliel S(1993)The spliceosomal snRNP core complex of Proc Natl Acad Sci USA 90 11608-11612
[9]  
Michaeli S(1997): cloning and functional analysis reveals seven Sm protein constituents. Annu Rev Microbiol 51 463-489
[10]  
Palfi Z(2003)A global analysis of Mol Cell 11 1291-1299
12345678910