Test data sets and evaluation of gene prediction programs on the rice genome
文献类型：期刊论文
| 作者 | Li, H; Liu, JS; Xu, Z; Jin, J; Fang, L; Gao, L; Li, YD; Xing, ZX; Gao, SG; Liu, T |
| 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 |
| ISSN号 | 1000-9000 |
| 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. |
| 学科主题 | Physics |
| URL标识 | 查看原文 |
| WOS记录号 | WOS:000230712400004 |
| 公开日期 | 2012-08-30 |
| 源URL | [http://ir.itp.ac.cn/handle/311006/13788]  |
| 专题 | 理论物理研究所_理论物理所1978-2010年知识产出 |
| 通讯作者 | Hao, BL , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China. |
| 推荐引用方式 GB/T 7714 | 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. |
| APA | Li, H.,Liu, JS.,Xu, Z.,Jin, J.,Fang, L.,...&Hao, BL , Acad Sinica, Inst Theoret Phys, POB 2735, Beijing 100080, Peoples R China..(2005).Test data sets and evaluation of gene prediction programs on the rice genome.JOURNAL OF COMPUTER SCIENCE AND TECHNOLOGY,20(4),446-453. |
| MLA | Li, H,et al."Test data sets and evaluation of gene prediction programs on the rice genome".JOURNAL OF COMPUTER SCIENCE AND TECHNOLOGY 20.4(2005):446-453. |
入库方式： OAI收割
来源：理论物理研究所
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