Welcome to LncSEA a comprehensive human lncRNA sets resource and enrichment analysis platform.
- LncSEA supports more than 40,000 reference lncRNA sets involved in 18 categories (miRNA , drug , disease , methylation pattern, cancer specific phenotype, lncRNA binding protein, cancer hallmark, subcellular localization, survival, lncRNA-eQTL, cell marker, enhancer, super-enhancer, transcription factor, accessible chromatin, smORF, exosome and conservation) and 66 sub-categories, which covered over 50,000 lncRNAs. We not only collected lncRNA sets based on downstream regulatory data sources but also calculated a large number of lncRNA sets regulated by upstream transcription factors (TFs) and DNA regulatory elements by integrating TF ChIP-seq, DNase-seq, ATAC-seq and H3K27ac ChIP-seq data associated with hundreds of human cell types. Importantly, LncSEA provides annotation and enrichment analysis functions of lncRNA sets associated with upstream regulators and downstream targets. In addition, LncSEA provides a user-friendly interface to search, browse and visualize detailed information about these lncRNA sets. In summary, LncSEA is a powerful platform that provides a variety of types of lncRNA sets for users and supports lncRNA annotation and enrichment analysis functions.
Main functions and operational guidelines
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Principal Investigator:Chunquan Li, Ph.D.
School of Medical Informatics,
Daqing Campus Harbin Medical University
39 Xinyang Road, Daqing 163319, China
SEdb: the comprehensive human Super-Enhancer database
ENdb: an experimentally supported enhancer database for human and mouse
SEanalysis: a web tool for super-enhancer associated regulatory analysis
ATACdb: a comprehensive human chromatin accessibility database
KnockTF: a comprehensive human gene expression profile database with knockdown/knockout of transcription factors
TRCirc: a resource for transcriptional regulation information of circRNAs
TRlnc: a comprehensive database of human transcriptional regulation of lncRNAs
VARAdb: a variation annotation database for human
Chen J, Zhang J, Gao Y, Li Y, Feng C, Song C, Ning Z, Zhou X, Zhao J, Feng M, Zhang Y, Wei L, Pan Q, Jiang Y, Qian F, Han J, Yang Y, Wang Q, Li C. LncSEA: a platform for long non-coding RNA related sets and enrichment analysis. Nucleic Acids Res. 2020 Oct 12:gkaa806. doi: 10.1093/nar/gkaa806. Epub ahead of print. PMID: 33045741.