For better experience, turn on JavaScript!



GWAS3D is a web-based tool for the computation of the probability of genetic variants that associate with regulatory pathways and respective diseases or traits. The GWAS3D algorithm integrates chromatin state, functional genomics, sequence motif, and conservation information with GWAS data or a variant list. See also GWAS4D server (links).


Transcription factors and regulatory sites; Molecular interactions, pathways and networks; Epigenetics; GWAS study; Sequencing


  • Operation: Haplotype mapping; Gene-set enrichment analysis; Variant calling; Genetic variation analysis; Visualisation
  • Software interface: Web user interface
  • Language: -
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: Not stated
  • Cost: Free
  • Version name: -
  • Credit: Council of Hong Kong, National Science Foundation of China, The University of Hong Kong.
  • Contact: junwen _at_ | _at_
  • Collection: -


Li MJ, Wang LY, Xia Z, Sham PC, Wang J "GWAS3D: Detecting human regulatory variants by integrative analysis of genome-wide associations, chromosome interactions and histone modifications." Nucleic Acids Res. 2013; 41(Web Server issue):W150-8
PMID: 23723249
PMCID: PMC3692118

Download and documentation

Currently not available or not maintained.

If you find errors, please report here.