dbInDel

dbInDel catalogs enhancer-associated insertion and deletion (InDel) variants by integrating high-throughput chromatin immunoprecipitation sequencing (ChIP-Seq) data for H3K27ac to elucidate their regulatory roles in the human and murine cancer epigenome.

Key Features:

• Comprehensive compilation: Assembles insertion and deletion (InDel) variants associated with enhancer regions to support analysis of non-coding genomic aberrations in cancer.
• H3K27ac ChIP-Seq integration: Utilizes H3K27ac chromatin immunoprecipitation sequencing data to identify active enhancers and map InDels within those regions.
• Transcription factor (TF) motif analysis: Identifies and visualizes upstream TF binding motifs present in enhancers containing InDels.
• Downstream target prediction: Predicts downstream target genes affected by enhancer-associated InDels to link variants to potential gene regulatory consequences.
• Support for functional studies: Provides compiled and annotated enhancer-associated InDels to facilitate prioritization for downstream functional validation.

Scientific Applications:

• Cancer epigenomics: Investigation of how enhancer-associated InDels contribute to dysregulation of transcriptional programs in cancer.
• Functional genomics: Identification and prioritization of non-coding InDels for experimental validation of regulatory impact on gene expression.
• Transcription factor research: Analysis of how InDels alter TF binding motifs and potentially modify transcriptional regulation.

Methodology:

Integrates high-throughput H3K27ac ChIP-Seq data to identify active enhancers and map insertion and deletion variants within those regions in human and murine samples.