期刊文献+
任意字段
题名或关键词
题名
关键词
文摘
作者
第一作者
机构
刊名
分类号
参考文献
作者简介
基金资助
栏目信息

原核生物基因组的CDS与ORF序列的几点分析

Analysis of CDS and ORF in Prokaryotic Genomes
下载PDF
导出
摘要 基因组的开放阅读框(ORF)是基因识别与基因组分析的基础,有多种软件包给出了它们的生成算法,但结果与指标并不统一.本文给出了po-MORF的定义与它的生成算法,证明了由基因组所确定的po-MORF集合的存在与唯一性,并由该生成算法可以得到全部po-MORF序列.我们还比较了若干原核生物基因组中所有CDS与po-MORF序列的相互关系,并讨论了关于基因识别中的有关问题. ORF is the basis of gene identification and genome analysis.There are lots of software to predict ORF,however,the results and indicators are not same.In this article,we give a new algorithm MORF,which is base on terminator,and a theorem which proves the existence and uniqueness of po-MORF.We also compare the CDS with po-MORF in S.Coehcolor A3（2） genomes and discuss relative problem in gene identification.
作者 沈世镒 高建召 胡刚 王奎
机构地区 南开大学数学科学学院与LPMC
出处 《生物数学学报》 CSCD 北大核心 2009年第1期33-39,共7页 Journal of Biomathematics
基金 天津大学 南开大学联合研究项目 刘徽应用数学研究中心与国家自然科学基金(10271061 90208022)资助
关键词 基因组的p_0-MORF序列 MORF生成算法 CDS与ORF序列集合的相互关系 p0-MORF sequence MORF algorithm Relationship of CDS and p0-MORF
分类号 O29 [理学—应用数学]
  • 相关文献

参考文献12

  • 1Christopher B Burge,Samuel Karlin.Finding the genes in genomic DNA[J].Current Opinion in Structural Biology 1998,8(3):346-354.
  • 2Zhang M Q.Computational prediction of eukaryotic protein-coding genes[J].Nature Reviews Genet,2002,3(9):698-248.
  • 3Hong-Yu Ou,Feng-Biao Guo,Chun-Ting Zhang.Analysis of nucleotide distribution in the genome of Streptomyces coelicolor A3(2) using the Z curve method.[J].FEBS Letters,2003,540(1-3):188-194.
  • 4Steven L Salzberg et al.Microbial gene identification using interpolated Markov methods[J].Nucleic Acids Research,1998,26(2):544-548.
  • 5Arthur L Delcher et al.Improved microbial gene identification with GLIMMER[J].Nucleic Acids Research,1999,27(23):4636-4641.
  • 6Chun Ting Zhang,Ju Wang,Ren Zhang.Using a Euclid distance discriminant method to find protein coding genes in the yeast genome[J].Computers and Chemistry,2002,26(3):195-206.
  • 7Zhang Ren,Zhang Chun Ting.Identification of replication origins in archaeal genomes based on the Z-curve method[J].Archaea,2005,1(5):335-346.
  • 8Zhang R,Zhang C T.Identification of replication origins in the genome of the methanogenic archaeon,Methanocaldococcus jannaschii[J].Extremophiles:life under extreme conditions,2004,8(3):253-258.
  • 9Zhang Ren,Zhang Chun Ting.Single replication origin of the archaeon Methanosarcina mazei revealed by the Z curve method[J].Biochemical and Biophysical Research Communications,2002,297(2):396-400.
  • 10韩乐,莫忠息.RNA-Z曲线及其在病毒基因识别中的应用[J].生物数学学报,2004,19(2):245-250. 被引量：6

二级参考文献19

  • 1蔡煜东,周斌,陈常庆,陈德辉.用人工神经网络方法确定真核基因启动子[J].生物数学学报,1994,9(1):77-80. 被引量：2
  • 2冯永强 阎小君 苏成芝.基因芯片技术[J].http://www.bioon com/biochip/papers/jyxpjs.htm,2001.
  • 3Bains W, Smith G. A novel method for nucleic acid sequence determination[J]. Journal of Theoretical Biology, 1998, 135(3):303-307.
  • 4Ben-Dor A, Bruhn, Friedman N, et al. Tissue Classification with Gene Expression Profiles[A]. Proceeding of the fourth annual international conference on computational molecular biology[C]. Acre Press, Tokyo,Japan, 2000, 54-64.
  • 5Gorban A N, Yu Z A, Popova T G. Statistical Approaches to Automated Gene Identification Without Teacher. Institut des Hautes Etudes Scientifiques. 2001. IHES /M / 01 /34.
  • 6Wang J T L, Ma Q, Shasha D, et al. New Techniques for Extracting Features from Protein Sequences[J].IBM Systems Journal, 2001, 40(2):426-441.
  • 7Dudoit S, Yang Y H, Callow M J, et al. Terence P Speed. Statistical methods for identifying differentially expressed gene in replicated cDNA microarray experiments[J]. Statistica Sinica, 2002, 12(1):111-139.
  • 8Editorial. Bioinformatics Needs to Adapt Statistical Thinking[J]. Bioinformatics, 2000, 17(5):389--390.
  • 9Steffn D L, Giegerich R, Wheeler D, et al. Biocomputing Hypertext Coursebook. http: // merlin.mbcr.bcm.tmc.edu :8001 /bcd /Curric/welcome.html.1996.
  • 10Rabiner L R, Juang B H. Fundamentals of Speech Recoonitions[M]. New York: Prentice Hall, 1993, 200-240.

共引文献8

生物数学学报
2009年 第1期

相关作者

内容加载中请稍等...

相关机构

内容加载中请稍等...

相关主题

内容加载中请稍等...

浏览历史

内容加载中请稍等...
;
使用帮助 返回顶部