dbSUPER: a database of super-enhancers in mouse and human genome

By Aziz Khan, Xuegong Zhang. bioRxiv, 2015

392 citations recorded by the source corpus.

Super-enhancers are the clusters of transcriptional enhancers that can drive cell-type-specific gene expression and also crucial in cell identity. Many disease-associated sequence variations are enriched in super-enhancer regions of disease-relevant cell types. Thus, super-enhancers can be used as potential biomarkers for disease diagnosis and therapeutics. Current studies have identified super-enhancers in more than 100 cell types and demonstrated their functional importance. However, no centralized resource to integrate all these findings is available yet. We developed dbSUPER (http://bioinfo.au.tsinghua.edu.cn/dbsuper/), the first integrated and interactive database of super-enhancers, with the primary goal of providing a resource for assistance in further studies related to transcriptional control of cell identity and disease. dbSUPER provides a responsive and user-friendly web interface to facilitate efficient and comprehensive search and browsing. The data can be easily sent to Galaxy instances, GREAT and Cistrome web servers for downstream analysis, and can be visualized in UCSC genome browser while custom tracks added automatically. The data can be downloaded and exported in variety of formats. Further, dbSUPER lists genes associated with the super-enhancers and links to various other databases such as GeneCards, UniProt and Entrez. dbSUPER also provides an overlap analysis tool, to annotate user defined regions. We believe dbSUPER is a valuable resource for the biologists and genetic research communities.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/c1cc07dbf7a815a0a80449ae5f791cf736e80ec7

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In Molecular Biology

1. Anthony Mathelier
2. Aziz Khan

Citations in the corpus

• Intervene: a tool for intersection and visualization of multiple gene or genomic region sets (2017, methodology): “As an example, we obtained the genomic regions of super enhancers in 24 mouse cell type and tissues from dbSUPER [18] and computed the pairwise intersections in terms of Jaccard statistics (Fig.”