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题名: Test data sets and evaluation of gene prediction programs on the rice genome
作者: Li, H ;  Liu, JS ;  Xu, Z ;  Jin, J ;  Fang, L ;  Gao, L ;  Li, YD ;  Xing, ZX ;  Gao, SG ;  Liu, T ;  Li, HH ;  Li, Y ;  Fang, LJ ;  Xie, HM ;  Zheng, WM ;  Hao, BL
刊名: JOURNAL OF COMPUTER SCIENCE AND TECHNOLOGY
出版日期: 2005
卷号: 20, 期号:4, 页码:446-453
关键词: DRAFT SEQUENCE ;  DNA-SEQUENCES ;  IDENTIFICATION ;  CHROMOSOME-4 ;  JAPONICA ;  SEARCH ;  MODELS ;  BLAST
学科分类: Physics
通讯作者: Hao, BL , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China.
部门归属: Acad Sinica, Inst Theoret Phys, Beijing 100080, Peoples R China; Acad Sinica, Beijing Genom Inst, Beijing 101300, Peoples R China; Beijing Normal Univ, Dept Math, Beijing 100875, Peoples R China; Acad Sinica, Inst Syst Sci, Beijing 100080, Peoples R China; BGI, Hangzhou Branch, Hangzhou 310008, Peoples R China; Suzhou Univ, Dept Math, Suzhou 215006, Peoples R China; Fudan Univ, T Life Res Ctr, Shanghai 200433, Peoples R China
英文摘要: With several rice genome projects approaching completion gene prediction/finding by computer algorithms has become an urgent task. Two test sets were constructed by mapping the newly published 28,469 full-length KOME rice cDNA to the RGP BAC clone sequences of Oryza sativa ssp. japonica: a single-gene set of 550 sequences and a multi-gene set of 62 sequences with 271 genes. These data sets were used to evaluate five ab initio gene prediction programs: RiceHMM, GlimmerR, GeneMark, FGENSH and BGF. The predictions were compared on nucleotide, exon and whole gene structure levels using commonly accepted measures and several new measures. The test results show a progress in performance in chronological order. At the same time complementarity of the programs hints on the possibility of further improvement and on the feasibility of reaching better performance by combining several gene-finders.
收录类别: SCI
原文出处: 查看原文
WOS记录号: WOS:000230712400004
Citation statistics: 
内容类型: 期刊论文
URI标识: http://ir.itp.ac.cn/handle/311006/13788
Appears in Collections:理论物理所1978-2010年知识产出_期刊论文

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Recommended Citation:
Li, H,Liu, JS,Xu, Z,et al. Test data sets and evaluation of gene prediction programs on the rice genome[J]. JOURNAL OF COMPUTER SCIENCE AND TECHNOLOGY,2005,20(4):446-453.
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