miRTarBase 2016: updates to the experimentally validated miRNA-target interactions database

被引：820

作者：

Chou, Chih-Hung ^{[1
]}

Chang, Nai-Wen ^{[2
]}

Shrestha, Sirjana ^{[3
]}

Hsu, Sheng-Da ^{[1
]}

Lin, Yu-Ling ^{[3
,4
]}

Lee, Wei-Hsiang ^{[1
,5
]}

Yang, Chi-Dung ^{[1
,6
]}

Hong, Hsiao-Chin ^{[1
]}

Wei, Ting-Yen ^{[7
]}

Tu, Siang-Jyun ^{[3
]}

Tsai, Tzi-Ren ^{[3
]}

Ho, Shu-Yi ^{[3
]}

Jian, Ting-Yan ^{[8
]}

Wu, Hsin-Yi ^{[8
]}

Chen, Pin-Rong ^{[8
]}

Lin, Nai-Chieh ^{[1
]}

Huang, Hsin-Tzu ^{[9
]}

Yang, Tzu-Ling ^{[1
]}

Pai, Chung-Yuan ^{[8
]}

Tai, Chun-San ^{[1
,8
]}

Chen, Wen-Liang ^{[1
,3
]}

Huang, Chia-Yen ^{[3
,10
]}

Liu, Chun-Chi ^{[11
]}

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

Liao, Kuang-Wen ^{[3
,8
]}

Hsu, Wen-Lian ^{[15
]}

Huang, Hsien-Da ^{[1
,3
,4
,16
]}

机构：

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

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

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

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

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

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

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

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

[9] Natl Chiao Tung Univ, Degree Program Appl Sci & Technol, Hsinchu 300, Taiwan

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

[11] Natl Chung Hsing Univ, Inst Genom & Bioinformat, Taichung 402, 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] Kaohsiung Med Univ, Dept Biomed Sci & Environm Biol, Kaohsiung 807, Taiwan

来源：

NUCLEIC ACIDS RESEARCH | 2016年 / 44卷 / D1期

关键词：

MESSENGER-RNA; COMPUTATIONAL METHODS; ONLINE RESOURCE; HUMAN MICRORNA; PROTEIN; IDENTIFICATION; CANCER; CLIP; GENES; DEREGULATION;

D O I：

10.1093/nar/gkv1258

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 approximately 22 nucleotides, which negatively regulate the gene expression at the post-transcriptional level. This study describes an update of the miRTarBase (http://miRTarBase.mbc.nctu.edu.tw/) that provides information about experimentally validated miRNA-target interactions (MTIs). The latest update of the miRTarBase expanded it to identify systematically Argonaute-miRNA-RNA interactions from 138 crosslinking and immunoprecipitation sequencing (CLIP-seq) data sets that were generated by 21 independent studies. The database contains 4966 articles, 7439 strongly validated MTIs (using reporter assays or western blots) and 348 007 MTIs from CLIP-seq. The number of MTIs in the miRTarBase has increased around 7-fold since the 2014 miRTarBase update. The miRNA and gene expression profiles from The Cancer Genome Atlas (TCGA) are integrated to provide an effective overview of this exponential growth in the miRNA experimental data. These improvements make the miRTarBase one of the more comprehensively annotated, experimentally validated miRNA-target interactions databases and motivate additional miRNA research efforts.

引用

页码：D239 / D247

页数：9

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