Here, we developed a comprehensive database of human transcriptional regulation of lncRNAs (TRlnc, http://www.licpathway.net/TRlnc), which aims to collect a large number of available resources of transcriptional regulatory regions of lncRNAs, and to annotate and illustrate their potential roles in the regulation of lncRNAs in cell type-specific manner.
The current version of TRlnc contains 8,683,028 typical enhancers/super-enhancers and 32,348,244 chromatin accessibility regions associated with 91,906 human lncRNAs. These regions were identified from over 900 human H3K27ac ChIP-seq, ATAC-seq and DNase-seq samples. Furthermore, TRlnc provides the detailed (epi) genetic information in transcriptional regulatory regions (promoter, enhancer/super-enhancer and chromatin accessibility regions) of lncRNAs, including common SNPs, Risk SNPs, eQTLs, Linkage disequilibrium SNPs, TFs predicted by motifs, TFs identified by ChIP-seq, methylation sites of 450K array, methylation sites of whole-genome shotgun bisulfite sequencing, histone modifications and 3D chromatin interactions, especially supporting the display of TFs binding to transcriptional regulatory regions from over 7,000 TF ChIP-seq samples. In addition, TRlnc integrates expression, diseases and miRNAs associated with lncRNAs from multiple sources.
|LncRNA||Number in GENCODE||13,523|
|Number in NONCODE||78,383|
|ChIP-seq||Number of Sources||4|
|Number of Samples||542|
|Number of Regions||8,684,552|
|ATAC-seq||Number of Sources||2|
|Number of Samples||128|
|Number of Regions||5,939,835|
|DNase-seq||Number of Sources||3|
|Number of Samples||290|
|Number of Regions||26,408,409|
Principal Investigator:Chunquan Li, Ph.D.
School of Medical Informatics,Daqing Campus Harbin Medical University 39 Xinyang Road, Daqing 163319, China