HDncRNA: a comprehensive database of non-coding RNAs associated with heart diseases.
HDncRNA: a comprehensive database of non-coding RNAs associated with heart diseases.
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HDncRNA：与心脏病相关的非编码 RNA 综合数据库。
DOI：
10.1093/database/bay067
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发表时间：
2018-01-01
期刊：
影响因子：
--
通讯作者：
Peng LY
中科院分区：
文献类型：
--
作者：
Wang WJ;Wang YM;Hu Y;Lin Q;Chen R;Liu H;Cao WZ;Zhu HF;Tong C;Li L;Peng LY
心脏病（hd）是一组涉及心脏的常见疾病，其中一些疾病的特点是高发病率和高致死率。近年来，越来越多的证据表明，多种非编码rna （ncrna）在hd中发挥着关键作用。然而，目前缺乏对HDs和ncrna之间关系的系统研究。在这里，我们开发了一个心脏病相关的非编码rna数据库（HDncRNA），从3个不同的来源，包括1904篇发表的文章，3个现有的数据库[人类微rna疾病数据库（HMDD）， mir2疾病和lncrnadease]和5个RNA-seq数据集，来整理HDs-ncRNA之间的关联。HDs-ncRNA与这些文章、HMDD、mir2疾病和部分lncrna疾病数据的实验验证的关联是“直接证据”。从lncRNAdisease的高通量数据和RNA-seq数据中注释的差异表达lncrna中获得的关系被定义为“高通量关联”。从hd的RNA-seq数据中鉴定出的新型lncrna可信度最低，被定义为“预测关联”。目前，该数据库包含人类、小鼠、大鼠、猪、小牛和狗等6个物种的133种HDs的2304种HDs- ncrna关联。该数据库还具有下列特点：(i)一个方便用户浏览和搜索数据的网络界面；（ii）绘制人类和小鼠基因组中miRNA和lncRNA位置的可视化工具；（iii） lncrna的邻近基因信息；（iv）注释lncrna和mirna的主流数据库链接，包括miRbase、Ensemble和Fantom Cat。综上所述，hndcrna为探索hd相关ncrna提供了一个很好的平台。数据库地址：http://hdncrna.cardiacdev.com
Heart diseases (HDs) represent a common group of diseases that involve the heart, a number of which are characterized by high morbidity and lethality. Recently, increasing evidence demonstrates diverse non-coding RNAs (ncRNAs) play critical roles in HDs. However, currently there lacks a systematic investigation of the association between HDs and ncRNAs. Here, we developed a Heart Disease-related Non-coding RNAs Database (HDncRNA), to curate the HDs-ncRNA associations from 3 different sources including 1904 published articles, 3 existing databases [the Human microRNA Disease Database (HMDD), miR2disease and lncRNAdisease] and 5 RNA-seq datasets. The HDs-ncRNA associations with experimental validations curated from these articles, HMDD, miR2disease and part of data from lncRNAdisease were ‘direct evidence’. Relationships got from high-through data in lncRNAdisease and annotated differential expressed lncRNAs from RNA-seq data were defined as ‘high-throughput associations’. Novel lncRNAs identified from RNA-seq data in HDs had least credibility and were defined as ‘predicted associations’. Currently, the database contains 2304 HDs-ncRNA associations for 133 HDs in 6 species including human, mouse, rat, pig, calf and dog. The database also has the following features: (i) A user-friendly web interface for browsing and searching the data; (ii) a visualization tool to plot miRNA and lncRNA locations in the human and mouse genomes; (iii) information about neighboring genes of lncRNAs and (iv) links to some mainstream databases including miRbase, Ensemble and Fantom Cat for the annotated lncRNAs and miRNAs. In summary, HDncRNA provides an excellent platform for exploring HDs related ncRNAs. Database URL: http://hdncrna.cardiacdev.com
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作者：
Sun L;Zhang Z;Bailey TL;Perkins AC;Tallack MR;Xu Z;Liu H
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Liu H
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