UNIT 21.10 Identifying Chromosomal Targets of DNA-Binding Proteins by Sequence Tag Analysis of Genomic Enrichment (STAGE)
Published Online: 1 NOV 2005
Copyright © 2005 by John Wiley & Sons, Inc.
Lab Protocol Title
Current Protocols in Molecular Biology
How to Cite
Kim, J. and Iyer, V. R. 2005. Identifying Chromosomal Targets of DNA-Binding Proteins by Sequence Tag Analysis of Genomic Enrichment (STAGE). Current Protocols in Molecular Biology. 72:21.10:21.10.1–21.10.16.
- Published Online: 1 NOV 2005
- Published Print: OCT 2005
Sequence Tag Analysis of Genomic Enrichment (STAGE) is a method for experimentally identifying the in vivo chromosomal targets of DNA-binding proteins in any sequenced genome. STAGE generates 21-bp tags derived from DNA isolated by chromatin immunoprecipitation (ChIP; unit 21.3). Concatamers of tags are cloned and sequenced to yield a STAGE library. Tags in the library represent DNA fragments that were occupied by the DNA-binding protein, and mapping these tag sequences to the genome identifies the binding loci of the DNA-binding protein in vivo. STAGE can be applied to any sequenced genome to identify targets of DNA-binding proteins without requiring extensive microarray resources.
- Chromatin immunoprecipitation (ChIP);
- DNA-protein interaction;
- Serial analysis of gene expression (SAGE);
- Sequence tag analysis of genomic enrichment (STAGE);