miRTarBase update 2018: a resource for experimentally validated microRNA-target interactions

被引：1357

作者：

Chou, Chih-Hung ^{[1
,2
]}

Shrestha, Sirjana ^{[2
]}

Yang, Chi-Dung ^{[2
,3
]}

Chang, Nai-Wen ^{[4
]}

Lin, Yu-Ling ^{[2
,5
]}

Liao, Kuang-Wen ^{[2
,6
]}

Huang, Wei-Chi ^{[1
,2
]}

Sun, Ting-Hsuan ^{[2
]}

Tu, Siang-Jyun ^{[1
]}

Lee, Wei-Hsiang ^{[2
,7
]}

Chiew, Men-Yee ^{[2
]}

Tai, Chun-San ^{[2
]}

Wei, Ting-Yen ^{[8
]}

Tsai, Tzi-Ren ^{[2
]}

Huang, Hsin-Tzu ^{[2
]}

Wang, Chung-Yu ^{[6
]}

Wu, Hsin-Yi ^{[6
]}

Ho, Shu-Yi ^{[2
]}

Chen, Pin-Rong ^{[6
]}

Chuang, Cheng-Hsun ^{[6
]}

Hsieh, Pei-Jung ^{[2
]}

Wu, Yi-Shin ^{[2
]}

Chen, Wen-Liang ^{[2
]}

Li, Meng-Ju ^{[2
,9
]}

Wu, Yu-Chun ^{[2
]}

Huang, Xin-Yi ^{[2
]}

Ng, Fung Ling ^{[2
]}

Buddhakosai, Waradee ^{[2
]}

Huang, Pei-Chun ^{[10
]}

Lan, Kuan-Chun ^{[6
]}

Huang, Chia-Yen ^{[2
,11
]}

Weng, Shun-Long ^{[12
,13
,14
]}

Cheng, Yeong-Nan ^{[1
]}

Liang, Chao ^{[1
]}

Hsu, Wen-Lian ^{[15
]}

Huang, Hsien-Da ^{[1
,2
,16
,17
]}

机构：

[1] Natl Chiao Tung Univ, Inst Bioinformat & Syst Biol, Hsinchu 300, Taiwan

[2] Natl Chiao Tung Univ, Dept Biol Sci & Technol, Hsinchu 300, Taiwan

[3] Natl Hlth Res Inst, Inst Populat Hlth Sci, Miaoli 350, Taiwan

[4] Natl Taiwan Univ, Grad Inst Biomed Elect & Bioinformat, Taipei 106, Taiwan

[5] Natl Chiao Tung Univ, Ctr Bioinformat Res, Hsinchu 300, Taiwan

[6] Natl Chiao Tung Univ, Inst Mol Med & Bioengn, Hsinchu 300, Taiwan

[7] Chung Shan Med Univ Hosp, Clin Res Ctr, Taichung 402, Taiwan

[8] Natl Tsing Hua Univ, Interdisciplinary Program Life Sci, Hsinchu 300, Taiwan

[9] Natl Taiwan Univ Hosp, Dept Pediat, Hsinchu Branch, Hsinchu 300, Taiwan

[10] Natl Taiwan Univ Hosp, Hsinchu Branch, Dept Nursing, Delivery Room, Hsinchu 300, Taiwan

[11] Cathay Gen Hosp, Dept Obstet & Gynecol, Gynecol Canc Ctr, Taipei 106, Taiwan

[12] Hsinchu Mackay Mem Hosp, Dept Obstet & Gynecol, Hsinchu 300, Taiwan

[13] Mackay Med Nursing & Management Coll, Taipei 112, Taiwan

[14] Mackay Med Coll, Dept Med, New Taipei 252, Taiwan

[15] Acad Sinica, Inst Informat Sci, Taipei 115, Taiwan

[16] Chinese Univ Hong Kong Shenzhen, Warshel Inst Computat Biol, Shenzhen 518172, Guangdong, Peoples R China

[17] Chinese Univ Hong Kong Shenzhen, Sch Sci & Engn, Shenzhen 518172, Guangdong, Peoples R China

来源：

NUCLEIC ACIDS RESEARCH | 2018年 / 46卷 / D1期

关键词：

INTEGRATIVE ANALYSIS; DATABASE; CANCER; TRANSCRIPTOME; PROTEIN; SITES; WIDE; IDENTIFICATION; ASSOCIATION; PATHWAYS;

D O I：

10.1093/nar/gkx1067

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

MicroRNAs (miRNAs) are small non-coding RNAs of similar to 22 nucleotides that are involved in negative regulation of mRNA at the post-transcriptional level. Previously, we developed miRTarBase which provides information about experimentally validated miRNA-target interactions (MTIs). Here, we describe an updated database containing 422 517 curated MTIs from 4076 miRNAs and 23 054 target genes collected from over 8500 articles. The number of MTIs curated by strong evidence has increased similar to 1.4-fold since the last update in 2016. In this updated version, target sites validated by reporter assay that are available in the literature can be downloaded. The target site sequence can extract new features for analysis via a machine learning approach which can help to evaluate the performance of miRNA-target prediction tools. Furthermore, different ways of browsing enhance user browsing specific MTIs. With these improvements, miRTarBase serves as more comprehensively annotated, experimentally validated miRNA-target interactions databases in the field of miRNA related research. miRTarBase is available at http://miRTarBase.mbc.nctu.edu.tw/.

引用

页码：D296 / D302

页数：7

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