5C Analysis of 3C, ChIP-Loop, and Control Libraries
Kim, Tae Hoon ; Dekker, Job
Kim, Tae Hoon
Dekker, Job
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Student Authors
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UMass Chan Affiliations
Document Type
Journal Article
Publication Date
2018-09-04
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Abstract
This protocol describes the 5C method of detecting ligation products in 3C, ChIP-loop, or control libraries. The method starts with a purified 3C library, a purified ChIP-loop library, or a purified control library. Before starting the protocol, assess the quality of the library that will be used by performing semiquantitative polymerase chain reaction (PCR). Ligation products should be readily detectable and nearby restriction fragments should be ligated more frequently than distant fragments. The design of the 5C primers and methods to determine interaction frequencies are also described in this protocol.
Source
Cold Spring Harb Protoc. 2018 Sep 4;2018(9):pdb.prot097899. doi: 10.1101/pdb.prot097899. Link to article on publisher's site
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DOI
10.1101/pdb.prot097899
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PubMed ID
30181223