LncRNADisease


37819033	LncRNADisease v3.0: an updated database of long non-coding RNA-associated diseases. [PMID: 37819033] Xiao Lin, Yingyu Lu, Chenhao Zhang, Qinghua Cui, Yi-Da Tang, Xiangwen Ji, Chunmei Cui Abstract Systematic integration of lncRNA-disease associations is of great importance for further understanding their underlying molecular mechanisms and exploring lncRNA-based biomarkers and therapeutics. The database of long non-coding RNA-associated diseases (LncRNADisease) is designed for the above purpose. Here, an updated version (LncRNADisease v3.0) has curated comprehensive lncRNA (including circRNA) and disease associations from the burgeoning literatures. LncRNADisease v3.0 exhibits an over 2-fold increase in experimentally supported associations, with a total of 25440 entries, compared to the last version. Besides, each lncRNA-disease pair is assigned a confidence score based on experimental evidence. Moreover, all associations between lncRNAs/circRNAs and diseases are classified into general associations and causal associations, representing whether lncRNAs or circRNAs can directly lead to the development or progression of corresponding diseases, with 15721 and 9719 entries, respectively. In a case study, we used the data of LncRNADisease v3.0 to calculate the phenotypic similarity between human and mouse lncRNAs. This database will continue to serve as a valuable resource for potential clinical applications related to lncRNAs and circRNAs. LncRNADisease v3.0 is freely available at http://www.rnanut.net/lncrnadisease. Nucleic Acids Res. 2024:52(D1) \| 15 Citations (from Europe PMC, 2025-03-01)
31942978	Annotation and curation of the causality information in LncRNADisease. [PMID: 31942978] Kaiwen Jia, Yuanxu Gao, Jiangcheng Shi, Yuan Zhou, Yong Zhou, Qinghua Cui Abstract Disease causative non-coding RNAs (ncRNAs) are of great importance in understanding a disease, for they directly contribute to the development or progress of a disease. Identifying the causative ncRNAs can provide vital implications for biomedical researches. In this work, we updated the long non-coding RNA disease database (LncRNADisease) with long non-coding RNA (lncRNA) causality information with manual annotations of the causal associations between lncRNAs/circular RNAs (circRNAs) and diseases by reviewing related publications. Of the total 11 568 experimental associations, 2297 out of 10 564 lncRNA-disease associations and 198 out of 1004 circRNA-disease associations were identified to be causal, whereas 635 lncRNAs and 126 circRNAs were identified to be causative for the development or progress of at least one disease. The updated information and functions of the database can offer great help to future researches involving lncRNA/circRNA-disease relationship. The latest LncRNADisease database is available at http://www.rnanut.net/lncrnadisease. Database (Oxford). 2020:2020() \| 2 Citations (from Europe PMC, 2025-03-15)
30285109	LncRNADisease 2.0: an updated database of long non-coding RNA-associated diseases. [PMID: 30285109] Bao Z, Yang Z, Huang Z, Zhou Y, Cui Q, Dong D. Abstract Mounting evidence suggested that dysfunction of long non-coding RNAs (lncRNAs) is involved in a wide variety of diseases. A knowledgebase with systematic collection and curation of lncRNA-disease associations is critically important for further examining their underlying molecular mechanisms. In 2013, we presented the first release of LncRNADisease, representing a database for collection of experimental supported lncRNA-disease associations. Here, we describe an update of the database. The new developments in LncRNADisease 2.0 include (i) an over 40-fold lncRNA-disease association enhancement compared with the previous version; (ii) providing the transcriptional regulatory relationships among lncRNA, mRNA and miRNA; (iii) providing a confidence score for each lncRNA-disease association; (iv) integrating experimentally supported circular RNA disease associations. LncRNADisease 2.0 documents more than 200 000 lncRNA-disease associations. We expect that this database will continue to serve as a valuable source for potential clinical application related to lncRNAs. LncRNADisease 2.0 is freely available at http://www.rnanut.net/lncrnadisease/. Nucleic Acids Res. 2019:47(D1) \| 290 Citations (from Europe PMC, 2025-03-15)
23175614	LncRNADisease: a database for long-non-coding RNA-associated diseases. [PMID: 23175614] Chen G, Wang Z, Wang D, Qiu C, Liu M, Chen X, Zhang Q, Yan G, Cui Q. Abstract In this article, we describe a long-non-coding RNA (lncRNA) and disease association database (LncRNADisease), which is publicly accessible at http://cmbi.bjmu.edu.cn/lncrnadisease. In recent years, a large number of lncRNAs have been identified and increasing evidence shows that lncRNAs play critical roles in various biological processes. Therefore, the dysfunctions of lncRNAs are associated with a wide range of diseases. It thus becomes important to understand lncRNAs' roles in diseases and to identify candidate lncRNAs for disease diagnosis, treatment and prognosis. For this purpose, a high-quality lncRNA-disease association database would be extremely beneficial. Here, we describe the LncRNADisease database that collected and curated approximately 480 entries of experimentally supported lncRNA-disease associations, including 166 diseases. LncRNADisease also curated 478 entries of lncRNA interacting partners at various molecular levels, including protein, RNA, miRNA and DNA. Moreover, we annotated lncRNA-disease associations with genomic information, sequences, references and species. We normalized the disease name and the type of lncRNA dysfunction and provided a detailed description for each entry. Finally, we developed a bioinformatic method to predict novel lncRNA-disease associations and integrated the method and the predicted associated diseases of 1564 human lncRNAs into the database. Nucleic Acids Res. 2013:41(Database issue) \| 545 Citations (from Europe PMC, 2025-03-15)

LncRNADisease v3.0: an updated database of long non-coding RNA-associated diseases. [PMID: 37819033]

Xiao Lin, Yingyu Lu, Chenhao Zhang, Qinghua Cui, Yi-Da Tang, Xiangwen Ji, Chunmei Cui

Systematic integration of lncRNA-disease associations is of great importance for further understanding their underlying molecular mechanisms and exploring lncRNA-based biomarkers and therapeutics. The database of long non-coding RNA-associated diseases (LncRNADisease) is designed for the above purpose. Here, an updated version (LncRNADisease v3.0) has curated comprehensive lncRNA (including circRNA) and disease associations from the burgeoning literatures. LncRNADisease v3.0 exhibits an over 2-fold increase in experimentally supported associations, with a total of 25440 entries, compared to the last version. Besides, each lncRNA-disease pair is assigned a confidence score based on experimental evidence. Moreover, all associations between lncRNAs/circRNAs and diseases are classified into general associations and causal associations, representing whether lncRNAs or circRNAs can directly lead to the development or progression of corresponding diseases, with 15721 and 9719 entries, respectively. In a case study, we used the data of LncRNADisease v3.0 to calculate the phenotypic similarity between human and mouse lncRNAs. This database will continue to serve as a valuable resource for potential clinical applications related to lncRNAs and circRNAs. LncRNADisease v3.0 is freely available at http://www.rnanut.net/lncrnadisease.

Nucleic Acids Res. 2024:52(D1) | 15 Citations (from Europe PMC, 2025-03-01)

Annotation and curation of the causality information in LncRNADisease. [PMID: 31942978]

Kaiwen Jia, Yuanxu Gao, Jiangcheng Shi, Yuan Zhou, Yong Zhou, Qinghua Cui

Abstract

Disease causative non-coding RNAs (ncRNAs) are of great importance in understanding a disease, for they directly contribute to the development or progress of a disease. Identifying the causative ncRNAs can provide vital implications for biomedical researches. In this work, we updated the long non-coding RNA disease database (LncRNADisease) with long non-coding RNA (lncRNA) causality information with manual annotations of the causal associations between lncRNAs/circular RNAs (circRNAs) and diseases by reviewing related publications. Of the total 11 568 experimental associations, 2297 out of 10 564 lncRNA-disease associations and 198 out of 1004 circRNA-disease associations were identified to be causal, whereas 635 lncRNAs and 126 circRNAs were identified to be causative for the development or progress of at least one disease. The updated information and functions of the database can offer great help to future researches involving lncRNA/circRNA-disease relationship. The latest LncRNADisease database is available at http://www.rnanut.net/lncrnadisease.

Database (Oxford). 2020:2020() | 2 Citations (from Europe PMC, 2025-03-15)

LncRNADisease 2.0: an updated database of long non-coding RNA-associated diseases. [PMID: 30285109]

Bao Z, Yang Z, Huang Z, Zhou Y, Cui Q, Dong D.

Abstract

Mounting evidence suggested that dysfunction of long non-coding RNAs (lncRNAs) is involved in a wide variety of diseases. A knowledgebase with systematic collection and curation of lncRNA-disease associations is critically important for further examining their underlying molecular mechanisms. In 2013, we presented the first release of LncRNADisease, representing a database for collection of experimental supported lncRNA-disease associations. Here, we describe an update of the database. The new developments in LncRNADisease 2.0 include (i) an over 40-fold lncRNA-disease association enhancement compared with the previous version; (ii) providing the transcriptional regulatory relationships among lncRNA, mRNA and miRNA; (iii) providing a confidence score for each lncRNA-disease association; (iv) integrating experimentally supported circular RNA disease associations. LncRNADisease 2.0 documents more than 200 000 lncRNA-disease associations. We expect that this database will continue to serve as a valuable source for potential clinical application related to lncRNAs. LncRNADisease 2.0 is freely available at http://www.rnanut.net/lncrnadisease/.

Nucleic Acids Res. 2019:47(D1) | 290 Citations (from Europe PMC, 2025-03-15)

LncRNADisease: a database for long-non-coding RNA-associated diseases. [PMID: 23175614]

Chen G, Wang Z, Wang D, Qiu C, Liu M, Chen X, Zhang Q, Yan G, Cui Q.

Abstract

In this article, we describe a long-non-coding RNA (lncRNA) and disease association database (LncRNADisease), which is publicly accessible at http://cmbi.bjmu.edu.cn/lncrnadisease. In recent years, a large number of lncRNAs have been identified and increasing evidence shows that lncRNAs play critical roles in various biological processes. Therefore, the dysfunctions of lncRNAs are associated with a wide range of diseases. It thus becomes important to understand lncRNAs' roles in diseases and to identify candidate lncRNAs for disease diagnosis, treatment and prognosis. For this purpose, a high-quality lncRNA-disease association database would be extremely beneficial. Here, we describe the LncRNADisease database that collected and curated approximately 480 entries of experimentally supported lncRNA-disease associations, including 166 diseases. LncRNADisease also curated 478 entries of lncRNA interacting partners at various molecular levels, including protein, RNA, miRNA and DNA. Moreover, we annotated lncRNA-disease associations with genomic information, sequences, references and species. We normalized the disease name and the type of lncRNA dysfunction and provided a detailed description for each entry. Finally, we developed a bioinformatic method to predict novel lncRNA-disease associations and integrated the method and the predicted associated diseases of 1564 human lncRNAs into the database.

Nucleic Acids Res. 2013:41(Database issue) | 545 Citations (from Europe PMC, 2025-03-15)

URL:	http://www.rnanut.net/lncrnadisease/
Full name:	lncRNA and disease association database
Description:	LncRNADisease hosts disease associated lncRNAs and circRNAs and integrates comprehensive experimentally supported and predicted ncRNA-disease associations curated from manual literatures and other resources. A total of new 25440 lncRNAs-disease associations were included in the LncRNADisease.
Year founded:	2013
Last update:	2023-06-28
Version:	v3.0
Accessibility:	Accessible
Country/Region:	China

Data type:	RNA
Data object:	Animal
Database category:	Health and medicine Literature
Major species:	Homo sapiens Mus musculus Rattus norvegicus Gallus gallus
Keywords:	lncRNA circRNA disease association

University/Institution:	Peking University
Address:	Department of Biomedical Informatics, School of Basic Medical Sciences, MOE Key Lab of Cardiovascular Sciences, Center for Noncoding RNA Medicine, Peking University, Beijing 100190, China.
City:	Beijing
Province/State:
Country/Region:	China
Contact name (PI/Team):	Qinghua Cui
Contact email (PI/Helpdesk):	cuiqinghua@bjmu.edu.cn

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Database Commons a catalog of worldwide biological databases

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LncRNADisease

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Database Commons
a catalog of worldwide biological databases