HiTIMED: hierarchical tumor immune microenvironment epigenetic deconvolution for accurate cell type resolution in the tumor microenvironment using tumor-type-specific DNA methylation data.

Ze ZhangJohn K WienckeKarl T KelseyDevin C KoestlerBrock C ChristensenLucas A Salas

Published in: Journal of translational medicine (2022)

We developed HiTIMED, a DNA methylation-based algorithm, to estimate cell proportions in the tumor microenvironment with high resolution and accuracy. HiTIMED deconvolution is amenable to archival biospecimens providing high-resolution profiles enabling to study of clinical and biological implications of variation and composition of the tumor microenvironment.

Keyphrases

dna methylation
high resolution
genome wide
gene expression
mass spectrometry
stem cells
machine learning
single cell
electronic health record
deep learning
copy number
high speed
neural network