iCis i-Cardio

iCis i-Cardio provides comprehensive analysis of cardiovascular-related cis-regulatory elements across human and mouse genomes to support investigation of regulatory mechanisms underlying cardiovascular disease.

Key Features:

• Extensive Data Catalog: Contains 45,382,361 genomic regions derived from 1,013 epigenetic datasets in human and mouse, including data from ATAC-seq, DNase-seq, Histone ChIP-seq, TF/TcoF ChIP-seq, RNA polymerase ChIP-seq, and Cohesin ChIP-seq.
• Comprehensive Analysis Tools: Provides Region Overlap Analysis, Element Upstream/Downstream Analysis, Transcription Regulator Enrichment Analysis, Variant Interpretation, and Protein-Protein Interaction-Based Co-Regulatory Analysis for interrogation of cis-regulatory regions.
• Detailed Annotations: Supplies annotations for super-enhancers, enhancers, transcription factor binding sites (TFBSs), methylation sites, common SNPs, risk SNPs, expression quantitative trait loci (eQTLs), motifs, DNase I hypersensitive sites (DHSs), and 3D chromatin interactions.

Scientific Applications:

• Regulatory element function: Investigating the role of cardiovascular-specific cis-regulatory elements in gene expression regulation.
• Variant interpretation: Identifying and interpreting genetic variants, including common and risk SNPs, associated with cardiovascular diseases.
• Regulatory network analysis: Exploring transcriptional regulatory networks and protein–protein interaction–based co-regulation relevant to cardiovascular disease mechanisms.

Methodology:

Integrates and systematically processes data from ATAC-seq, DNase-seq, Histone ChIP-seq, TF/TcoF ChIP-seq, RNA polymerase ChIP-seq, and Cohesin ChIP-seq to enable integrative analyses of cis-regulatory landscapes in human and mouse.