MATCHER: manifold alignment reveals correspondence between single cell transcriptome and epigenome dynamics.

Journal Article (Journal Article)

Single cell experimental techniques reveal transcriptomic and epigenetic heterogeneity among cells, but how these are related is unclear. We present MATCHER, an approach for integrating multiple types of single cell measurements. MATCHER uses manifold alignment to infer single cell multi-omic profiles from transcriptomic and epigenetic measurements performed on different cells of the same type. Using scM&T-seq and sc-GEM data, we confirm that MATCHER accurately predicts true single cell correlations between DNA methylation and gene expression without using known cell correspondences. MATCHER also reveals new insights into the dynamic interplay between the transcriptome and epigenome in single embryonic stem cells and induced pluripotent stem cells.

Full Text

Duke Authors

Cited Authors

  • Welch, JD; Hartemink, AJ; Prins, JF

Published Date

  • July 24, 2017

Published In

Volume / Issue

  • 18 / 1

Start / End Page

  • 138 -

PubMed ID

  • 28738873

Pubmed Central ID

  • PMC5525279

Electronic International Standard Serial Number (EISSN)

  • 1474-760X

Digital Object Identifier (DOI)

  • 10.1186/s13059-017-1269-0


  • eng

Conference Location

  • England