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PMID: 16701069 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Two-dimensional electrophoretic mobility shift assay: identification and mapping of transcription factor CTCF target sequences within an FXYD5-COX7A1 region of human chromosome 19.

Analytical biochemistry ·Vol. 354 ·No. 1 ·2006-07-01 ·Pages 85-93

Vetchinova AS, Akopov SB, Chernov IP, Nikolaev LG, Sverdlov ED

Abstract

An approach for fast identification and mapping of transcription factor binding sites within long genomic sequences is proposed. Using this approach, 10 CCCTC-binding factor (CTCF) binding sites were identified within a 1-Mb FXYD5-COX7A1 human chromosome 19 region. In vivo binding of CTCF to these sites was verified by chromatin immunoprecipitation assay. CTCF binding sites were mapped within gene introns and intergenic regions, and some of them contained Alu-like repeated elements.

MeSH Terms

Alu Elements Binding Sites CCCTC-Binding Factor Chromatin Immunoprecipitation/methods Chromosome Mapping Chromosomes, Human, Pair 19 DNA, Intergenic DNA-Binding Proteins/analysis,metabolism Electron Transport Complex IV/genetics Electrophoretic Mobility Shift Assay/methods HeLa Cells Humans Introns Ion Channels Membrane Glycoproteins/genetics Microfilament Proteins Models, Genetic Neoplasm Proteins/genetics Repressor Proteins/analysis,metabolism

Chemicals

CCCTC-Binding Factor CTCF protein, human DNA, Intergenic DNA-Binding Proteins FXYD5 protein, human Ion Channels Membrane Glycoproteins Microfilament Proteins Neoplasm Proteins Repressor Proteins COX7A1 protein, human Electron Transport Complex IV

Authors & Affiliations

5 authors, click to expand affiliations / ORCID

Vetchinova Anna S

Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow 117997, Russia.

Akopov Sergey B

Chernov Igor P

Nikolaev Lev G

Sverdlov Eugene D

Article Info

Journal

Analytical biochemistry

Abbr.

Anal Biochem

ISSN

0003-2697

DOI

10.1016/j.ab.2006.03.052

Published

2006-07-01

Epub

2006-00-02

Pages

85-93

Language

English

Region

United States

NLM ID

0370535

Subset

External Links

PubMed source DOI: 10.1016/j.ab.2006.03.052 View journal details

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Two-dimensional electrophoretic mobility shift assay: identification and mapping of transcription factor CTCF target sequences within an FXYD5-COX7A1 region of human chromosome 19.

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