LncACTdb 2.0: an updated database of experimentally supported ceRNA interactions curated from low- and high-throughput experiments
| Autor: | Dianshuang Zhou, Ying Fang, Yue Gao, Lihua Wang, Yunpeng Zhang, Xia Li, Weisha Liu, Xin Li, Hui Zhi, Xueyan Ma, Qiuyan Guo, Yanxia Wang, Weitao Shen, Shangwei Ning, Peng Wang |
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| Rok vydání: | 2018 |
| Předmět: |
Interface (computing)
Throughput Web Browser Biology computer.software_genre User-Computer Interface 03 medical and health sciences 0302 clinical medicine Genetics Humans Database Issue 030304 developmental biology 0303 health sciences Database Competing endogenous RNA Basic Local Alignment Search Tool Computational Biology Genomics Visualization MicroRNAs RNA RNA Interference RNA Long Noncoding Databases Nucleic Acid computer Biomarkers Software 030217 neurology & neurosurgery |
| Zdroj: | Nucleic Acids Research |
| ISSN: | 1362-4962 0305-1048 |
| DOI: | 10.1093/nar/gky1144 |
| Popis: | We describe LncACTdb 2.0 (http://www.bio-bigdata.net/LncACTdb/), an updated and significantly expanded database which provides comprehensive information of competing endogenous RNAs (ceRNAs) in different species and diseases. We have updated LncACTdb 2.0 with more data and several new features, including (i) manually curating 2663 experimentally supported ceRNA interactions from >5000 published literatures; (ii) expanding the scope of the database up to 23 species and 213 diseases/phenotypes; (iii) curating more ceRNA types such as circular RNAs and pseudogenes; (iv) identifying and scoring candidate lncRNA-associated ceRNA interactions across 33 cancer types from TCGA data; (v) providing illustration of survival, network and cancer hallmark information for ceRNAs. Furthermore, several flexible online tools including LncACT-Get, LncACT-Function, LncACT-Survival, LncACT-Network and LncACTBrowser have been developed to perform customized analysis, functional analysis, survival analysis, network illustration and genomic visualization. LncACTdb 2.0 also provides newly designed, user-friendly web interfaces to search, browse and download all the data. The BLAST interface is convenient for users to query dataset by inputting custom sequences. The Hot points interface provides users the most studied items by others. LncACTdb 2.0 is a continually updated database and will serve as an important resource to explore ceRNAs in physiological and pathological processes. |
| Databáze: | OpenAIRE |
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