ADASTRA

ADASTRA maps allele-specific transcription factor (TF) binding across the human genome to link single-nucleotide polymorphisms (SNPs) with regulatory effects using integrated ChIP-Seq data.

Key Features:

• Allele-Specific Binding Analysis: Identifies allele-specific TF binding events at SNPs while accounting for aneuploidy and local copy number variations to improve detection in heterozygous loci.
• Comprehensive Database: Compiles data from over 7,000 ChIP-Seq experiments into a catalog of more than half a million entries at nearly 270,000 SNPs covering several hundred human TFs and cell types.
• Phenotype Associations: Cataloged polymorphisms are enriched for medically relevant phenotype associations and frequently overlap expression quantitative trait loci (eQTLs).
• Switching Sites Identification: Detects switching sites where different TFs preferentially bind alternative alleles, revealing allele-specific rewiring of regulatory interactions.

Scientific Applications:

• Gene Regulation Studies: Enables investigation of how SNPs in enhancers and promoters affect TF binding and transcriptional regulation.
• Disease Research: Supports identification of regulatory variants associated with disease susceptibility and progression.
• Functional Genomics: Links genetic variation to changes in TF binding to elucidate molecular pathways and regulatory mechanisms.

Methodology:

ADASTRA applies a meta-analytic integration of ChIP-Seq experiments and computational estimation of aneuploidy and local copy number variation effects directly from variant calls.