We designed a novel web server, SEanalysis 2.0, which provides a comprehensive super-enhancers regulatory network analysis, involving the identification of SE-associated genes, TFs occupying these SEs and the upstream signaling pathways of idenfitied TFs. Users can perform the following SEs-associated analyses in the web server:
I. TF regulatory analysis.
II. Sample comparative analysis.
III. Pathway downstream analysis.
IV. Upstream regulatory analysis.
V. Genomic region annotation.

The current version of SEanalysis contains a total of 1,717,744 super-enhancers from over 2,670 Samples, including 1,739 human samples and 931 mouse samples; 10,710 TF ChIP-seq data for 1,468 human TFs and 446 mouse TFs generated from these cells/tissues; DNA-binding sequence motifs for 869 human TFs and 568 mouse TFs; as well as 2,880 human pathways and 1,487 mouse pathways. SEanalysis 2.0 provides risk SNP annotation to link super-enhancer with diseases/trait. SEanalysis 2.0 supports searching by either SEs, samples, TFs, signaling pathways or genes. Furthermore, the complex regulatory networks formed by these factors can be interactively visualized.