Identifying specific protein-DNA interactions using SILAC-based quantitative proteomics

Cornelia G Spruijt; H Irem Baymaz; Michiel Vermeulen

doi:10.1007/978-1-62703-284-1_11

Identifying specific protein-DNA interactions using SILAC-based quantitative proteomics

Methods Mol Biol. 2013:977:137-57. doi: 10.1007/978-1-62703-284-1_11.

Authors

Cornelia G Spruijt¹, H Irem Baymaz, Michiel Vermeulen

Affiliation

¹ Department of Molecular Cancer Research, University Medical Center Utrecht, Utrecht, The Netherlands.

PMID: 23436359
DOI: 10.1007/978-1-62703-284-1_11

Abstract

A comprehensive identification of protein-DNA interactions that drive processes such as transcription and replication, both in prokaryotic and eukaryotic organisms, remains a major technical challenge. In this chapter, we present a SILAC-based DNA affinity purification method that can be used to identify specific interactions between proteins and functional DNA elements in an unbiased manner.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Cell Fractionation
Cell Nucleus / chemistry
Chromatography, Affinity
DNA / isolation & purification*
DNA-Binding Proteins / chemistry
DNA-Binding Proteins / isolation & purification*
Humans
Isotope Labeling
Mass Spectrometry
Protein Binding
Proteomics
Sequence Analysis, Protein

Substances

DNA-Binding Proteins
DNA