Key Laboratory of Arrhythmias, Ministry of Education, Tongji University School of Medicine, No. 150, Jimo Road, Pudong New District, Shanghai, China.
Research Center for Translational Medicine, Shanghai East Hospital, Tongji University School of Medicine, No. 150, Jimo Road, Pudong New District, Shanghai, China.
Database (Oxford). 2018 Jan 1;2018. doi: 10.1093/database/bay067.
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.
心脏病（HDs）是一组涉及心脏的常见疾病，其中许多疾病的发病率和死亡率都很高。最近，越来越多的证据表明，多种非编码 RNA（ncRNAs）在 HDs 中发挥着关键作用。然而，目前缺乏对 HDs 和 ncRNAs 之间关联的系统研究。在这里，我们开发了一个心脏病相关非编码 RNA 数据库（HDncRNA），从 3 个不同的来源（包括 1904 篇已发表的文章、3 个现有的数据库[人类 microRNA 疾病数据库（HMDD）、miR2disease 和 lncRNAdisease]和 5 个 RNA-seq 数据集）中整理了 HDs-ncRNA 的关联。从这些文章、HMDD、miR2disease 和部分 lncRNAdisease 中的数据中整理出具有实验验证的 HDs-ncRNA 关联被定义为“直接证据”。从 lncRNAdisease 的高通量数据和从 RNA-seq 数据中注释的差异表达 lncRNAs 中获得的关系被定义为“高通量关联”。从 RNA-seq 数据中鉴定的新 lncRNAs 可信度最低，被定义为“预测关联”。目前，该数据库包含 2304 种 HDs-ncRNA 关联，涉及 6 个物种（包括人类、小鼠、大鼠、猪、小牛和狗）的 133 种 HDs。该数据库还具有以下特点：（i）用户友好的网络界面，用于浏览和搜索数据；（ii）一个可视化工具，用于绘制人类和小鼠基因组中 miRNA 和 lncRNA 的位置；（iii）lncRNA 附近基因的信息；（iv）链接到 miRbase、Ensemble 和 Fantom Cat 等一些主流数据库，用于注释 lncRNAs 和 miRNAs。总之，HDncRNA 为探索与 HDs 相关的 ncRNAs 提供了一个极好的平台。数据库网址：http://hdncrna.cardiacdev.com。
