Semiconductor-based DNA sequencing of histone modification states

Nat Commun. 2013;4:2672. doi: 10.1038/ncomms3672.

Abstract

The recent development of a semiconductor-based, non-optical DNA sequencing technology promises scalable, low-cost and rapid sequence data production. The technology has previously been applied mainly to genomic sequencing and targeted re-sequencing. Here we demonstrate the utility of Ion Torrent semiconductor-based sequencing for sensitive, efficient and rapid chromatin immunoprecipitation followed by sequencing (ChIP-seq) through the application of sample preparation methods that are optimized for ChIP-seq on the Ion Torrent platform. We leverage this method for epigenetic profiling of tumour tissues.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Chromatin / metabolism
  • Chromatin Immunoprecipitation
  • Dendritic Cells / cytology
  • Dendritic Cells / metabolism
  • Epigenesis, Genetic
  • Female
  • Genome, Human*
  • Histones / genetics
  • Histones / metabolism*
  • Humans
  • Melanoma / chemistry*
  • Melanoma / genetics
  • Melanoma / metabolism
  • Mice
  • Mice, Inbred C57BL
  • Protein Processing, Post-Translational*
  • Semiconductors
  • Sequence Analysis, DNA / instrumentation*
  • Sequence Analysis, DNA / methods
  • Skin Neoplasms / chemistry*
  • Skin Neoplasms / genetics
  • Skin Neoplasms / metabolism

Substances

  • Chromatin
  • Histones

Associated data

  • GEO/GSE49477