Publications

How to cite IGEM, the methods research it builds on, and a growing list of studies that use it.

Cite IGEM

If IGEM contributed to your research, please cite the platform using the BibTeX entry below. Update the version field to match the release you used.

@software{igem_2026,
  author  = {Hall Lab},
  title   = {{IGEM}: Biologically-informed interaction filtering for {GWAS} and {EWAS}},
  year    = {2026},
  url     = {https://geneexposure.org},
  version = {0.1.0},
  note    = {Early access},
}

Foundational work

IGEM is the third generation of an integrated software line developed by the Hall Lab for high-dimensional interaction research. It combines the analytical surface of PLATO and CLARITE with a knowledge-driven filter inherited from Biofilter.

PLATO

Hall et al., Nature Communications, 2017

Integrated framework for GxG, GxE, and phenome-wide association studies, applied to type 2 diabetes in the eMERGE Network.

CLARITE

Lucas et al., Frontiers in Genetics, 2019

High-throughput pipeline for exposome quality control and environment-wide association studies.

Biofilter

Bush et al., 2009 · Pendergrass et al., 2013

Established knowledge-driven filtering for gene–gene interactions — the methodology IGEM extends to GxE and ExE.

Powered by IGEM

Studies that used IGEM in their analytical pipeline. This section grows with the community — if your paper used IGEM, we'd love to feature it here.

No featured studies yet. To submit a paper for inclusion, open an issue at github.com/HallLab/IGEM.