Journal
NUCLEIC ACIDS RESEARCH
Volume 49, Issue D1, Pages D969-D980Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkaa806
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Funding
- National Natural Science Foundation of China [81572341, 61601150]
- YuWeihan Outstanding Youth Training Fund of Harbin Medical University
- National Science Foundation of Heilongjiang Province [YQ2019C013]
- Wu Liande Youth Science Research Fund of Harbin Medical University (Daqing) [DQWLD201703]
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LncSEA is a powerful platform that provides a variety of types of lncRNA sets for users, and supports lncRNA annotations and enrichment analyses.
Long non-coding RNAs (lncRNAs) have been proven to play important roles in transcriptional processes and various biological functions. Establishing a comprehensive collection of human lncRNA sets is urgent work at present. Using reference lncRNA sets, enrichment analyses will be useful for analyzing lncRNA lists of interest submitted by users. Therefore, we developed a human lncRNA sets database, called LncSEA, which aimed to document a large number of available resources for human lncRNA sets and provide annotation and enrichment analyses for lncRNAs. LncSEA supports >40 000 lncRNA reference sets across 18 categories and 66 sub-categories, and covers over 50 000 lncRNAs. We not only collected lncRNA sets based on downstream regulatory data sources, but also identified a large number of lncRNA sets regulated by upstream transcription factors (TFs) and DNA regulatory elements by integrating TF ChIP-seq, DNaseseq, ATAC-seq and H3K27ac ChIP-seq data. Importantly, LncSEA provides annotation and enrichment analyses of lncRNA sets associated with upstream regulators and downstream targets. In summary, LncSEA is a powerful platform that provides a variety of types of lncRNA sets for users, and supports lncRNA annotations and enrichment analyses.
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