CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition

doi:10.1093/nar/gkz400

CORC > 计算技术研究所 > 中国科学院计算技术研究所 > 中国科学院计算技术研究所期刊论文 > 英文

	CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition
	Guo, Jin-Cheng 2,3,4; Fang, Shuang-Sang 4,5; Wu, Yang 2,4; Zhang, Jian-Hua 1; Chen, Yang 3; Liu, Jing 6; Wu, Bo 4; Wu, Jia-Rui 2; Li, En-Min 3; Xu, Li-Yan 3
刊名	NUCLEIC ACIDS RESEARCH
	2019-07-02
卷号	47 期号:W1 页码:W516-W522
ISSN号	0305-1048
DOI	10.1093/nar/gkz400
英文摘要	As more and more high-throughput data has been produced by next-generation sequencing, it is still a challenge to classify RNA transcripts into protein-coding or non-coding, especially for poorly annotated species. We upgraded our original coding potential calculator, CNCI (Coding-Non-Coding Index), to CNIT (Coding-Non-Coding Identifying Tool), which provides faster and more accurate evaluation of the coding ability of RNA transcripts. CNIT runs similar to 200 times faster than CNCI and exhibits more accuracy compared with CNCI (0.98 versus 0.94 for human, 0.95 versus 0.93 for mouse, 0.93 versus 0.92 for zebra-fish, 0.93 versus 0.92 for fruit fly, 0.92 versus 0.88 for worm, and 0.98 versus 0.85 for Arabidopsis transcripts). Moreover, the AUC values of 11 animal species and 27 plant species showed that CNIT was capable of obtaining relatively accurate identification results for almost all eukaryotic transcripts. In addition, a mobile-friendly web server is now freely available at http://cnit.noncode.org/CNIT.
资助项目	National Natural Science Foundation of China[91740113] ; National Natural Science Foundation for Young Scholars of China[31701141] ; National Natural Science Foundation for Young Scholars of China[31701149] ; National Natural Science Foundation for Young Scholars of China[31501066] ; Innovation Project for Institute of Computing Technology, CAS[20186060] ; National Natural Science Foundation of China
WOS研究方向	Biochemistry & Molecular Biology
语种	英语
出版者	OXFORD UNIV PRESS
WOS记录号	WOS:000475901600076
内容类型	期刊论文
源URL	[http://119.78.100.204/handle/2XEOYT63/4536]
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Xu, Li-Yan; Sun, Liang; Zhao, Yi
作者单位	1.Peking Univ, Dept Blood Transfus, Peoples Hosp, Beijing 100000, Peoples R China 2.Beijing Univ Chinese Med, Beijing 100029, Peoples R China 3.Shantou Univ, Key Lab Mol Biol High Canc Incidence Coastal Chao, Med Coll, Shantou 515041, Peoples R China 4.Chinese Acad Sci, Inst Comp Technol, Adv Comp Res Ctr, Key Lab Intelligent Informat Proc, Beijing 100190, Peoples R China 5.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 6.Northwest Univ, Coll Life Sci, Xian 710069, Shaanxi, Peoples R China
推荐引用方式 GB/T 7714	Guo, Jin-Cheng,Fang, Shuang-Sang,Wu, Yang,et al. CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition[J]. NUCLEIC ACIDS RESEARCH,2019,47(W1):W516-W522.
APA	Guo, Jin-Cheng.,Fang, Shuang-Sang.,Wu, Yang.,Zhang, Jian-Hua.,Chen, Yang.,...&Zhao, Yi.(2019).CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition.NUCLEIC ACIDS RESEARCH,47(W1),W516-W522.
MLA	Guo, Jin-Cheng,et al."CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition".NUCLEIC ACIDS RESEARCH 47.W1(2019):W516-W522.