UMass Chan Affiliations
Program in Gene Function and ExpressionDocument Type
Book ChapterPublication Date
2007-10-12Keywords
ChromosomesChromosomes, Artificial, Bacterial
DNA Primers
Molecular Biology
*Nucleic Acid Conformation
Oligonucleotide Array Sequence Analysis
Polymerase Chain Reaction
Sequence Analysis, DNA
Templates, Genetic
Genetics and Genomics
Metadata
Show full item recordAbstract
Chromosome conformation capture (3C) is used to quantify physical DNA contacts in vivo at high resolution. 3C was first used in yeast to map the spatial chromatin organization of chromosome III, and in higher eukaryotes to demonstrate that genomic DNA elements regulate target genes by physically interacting with them. 3C has been widely adopted for small-scale analysis of functional chromatin interactions along (cis) or between (trans) chromosomes. For larger-scale applications, chromosome conformation capture carbon copy (5C) combines 3C with ligation-mediated amplification (LMA) to simultaneously quantify hundreds of thousands of physical DNA contacts by microarray or ultra-high-throughput DNA sequencing. 5C allows the mapping of extensive networks of physical interactions among large sets of genomic elements throughout the genome. Such networks can provide important biological insights, e.g., by identifying relationships between regulatory elements and their target genes. This unit describes 5C for large-scale analysis of cis- and trans-chromatin interactions in mammalian cells.Source
Curr Protoc Mol Biol. 2007 Oct;Chapter 21:Unit 21.14. Link to article on publisher's siteDOI
10.1002/0471142727.mb2114s80Permanent Link to this Item
http://hdl.handle.net/20.500.14038/44122PubMed ID
18265398Related Resources
Link to Article in PubMedae974a485f413a2113503eed53cd6c53
10.1002/0471142727.mb2114s80