Mapping networks of physical interactions between genomic elements using 5C technology.

Mapping networks of physical interactions between genomic elements using 5C technology. Research Abstract Details 

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Mapping networks of physical interactions between genomic elements using 5C technology. Abstract Text:

Dostie,Job Dekker, Dostie,Job Dekker,

Genomic elements separated by large genomic distances can physically interact to mediate long-range gene regulation and other chromosomal processes. Interactions between genomic elements can be detected using the chromosome conformation capture (3C) technology. We recently developed a high-throughput adaptation of 3C, 3C-carbon copy (5C), that is used to measure networks of millions of chromatin interactions in parallel. As in 3C, cells are treated with formaldehyde to cross-link chromatin interactions. The chromatin is solubilized, digested with a restriction enzyme and ligated at low DNA concentration to promote intra-molecular ligation of cross-linked DNA fragments. Ligation products are subsequently purified to generate a 3C library. The 5C technology then employs highly multiplexed ligation-mediated amplification (LMA) to detect and amplify 3C ligation junctions. The resulting 5C library of ligated primers is analyzed using either microarray detection or ultra-high-throughput DNA sequencing. The 5C protocol described here can be completed in 13 d.

Mapping networks of physical interactions between genomic elements using 5C technology. Publishing Authors By Initials

J Dostie,J Dekker,J Dostie,J Dekker,

For similar investigative techniques: genetic techniques: nucleic acid amplification techniques: polymerase chain reaction research abstracts see: investigative techniques: genetic techniques: nucleic acid amplification techniques: polymerase chain reaction research

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Mapping networks of physical interactions between genomic elements using 5C technology. Journal Published:

PUBLICATION TYPE: Research Support, N.I.H., Extr

Journal: Nature protocols

VOLUME: 2

Page Numbers: 988-1002

Journal Abbreviation:

ISSN: 1750-2799

DAY: 3

MONTH: 12

YEAR: 2007

Mapping networks of physical interactions between genomic elements using 5C technology. Information

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LANGUAGE: eng

NlmUniqueID: 101284307

Mapping networks of physical interactions between genomic elements using 5C technology. Keywords Mesh Terms:

KEYWORDS: Polymerase Chain Reaction

MESH TERMS: methods

Chemical & Substance for Abstract: Mapping networks of physical interactions between genomic elements using 5C technology. Information

Substance Name: Chromatin

Registry Number: 0

Grant and Affiliation Information for Mapping networks of physical interactions between genomic elements using 5C technology.

AFFILIATION: Program in Gene Function and Expression and Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Lazare Research Building, 364 Plantation Street, Room 519, Worcester, Massachusetts 01605-4321, USA.

Country: England

AGENCY: United States NHGRI

GRANT: HG003143

ACRONYM: HG

MEDLINETA: Nat Protoc

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