Two-dimensional electrophoretic mobility shift assay: Identification and mapping of transcription factor CTCF target sequences within an FXYD5– COX7A1 region of human chromosome 19
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...
Gespeichert in:
| Veröffentlicht in: | Analytical biochemistry 2006-07, Vol.354 (1), p.85-93 |
|---|---|
| Hauptverfasser: | , , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 93 |
|---|---|
| container_issue | 1 |
| container_start_page | 85 |
| container_title | Analytical biochemistry |
| container_volume | 354 |
| creator | Vetchinova, Anna S. Akopov, Sergey B. Chernov, Igor P. Nikolaev, Lev G. Sverdlov, Eugene D. |
| description | 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. |
| doi_str_mv | 10.1016/j.ab.2006.03.052 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_68049630</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><els_id>S0003269706002442</els_id><sourcerecordid>68049630</sourcerecordid><originalsourceid>FETCH-LOGICAL-c379t-11537e4e35a1076c0833342c04cb149a45e474e92f5a895490849c1a5703b8813</originalsourceid><addsrcrecordid>eNqFkc9u1DAQhyMEokvhzgn5xC1hHDt_3Fu1sKVSpV4WqZwsx5lsvEriYHup9sY78C48UJ8Eh12JE-I0h_l-P43mS5K3FDIKtPywz1ST5QBlBiyDIn-WrCiIMgUG4nmyAgCW5qWoLpJX3u8BKOVF-TK5oGUFFEqxSn5tH23amhEnb-ykBoID6uDs3FuHwWgy2sYMJhyJ700XiPJeHa_IbYtTMJ3RKsQYUVNLRjXPZtoR25Hg1OS1M_OfZad0sI6st-sNCcrtMBCP3w44afTk0YTeLAVk8_D1Y_H04ydZ3z9U15Q43C3pWNcfxrjXvbOj9XZEQsXr5EWnBo9vzvMy-bL5tF1_Tu_ub27X13epZpUIKaUFq5AjKxSFqtRQM8Z4roHrhnKheIG84ijyrlC1KLiAmgtNVVEBa-qassvk_al3djae7IMcjdc4DGpCe_CyrIGLksF_QVrRWtSQRxBOoHbWe4ednJ0ZlTtKCnKRKvdSNXKRKoHJKDVG3p27D82I7d_A2WIErk4Axld8N-ik12b5b2tctClba_7d_hvvf7MD</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>17189802</pqid></control><display><type>article</type><title>Two-dimensional electrophoretic mobility shift assay: Identification and mapping of transcription factor CTCF target sequences within an FXYD5– COX7A1 region of human chromosome 19</title><source>MEDLINE</source><source>Elsevier ScienceDirect Journals</source><creator>Vetchinova, Anna S. ; Akopov, Sergey B. ; Chernov, Igor P. ; Nikolaev, Lev G. ; Sverdlov, Eugene D.</creator><creatorcontrib>Vetchinova, Anna S. ; Akopov, Sergey B. ; Chernov, Igor P. ; Nikolaev, Lev G. ; Sverdlov, Eugene D.</creatorcontrib><description>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.</description><identifier>ISSN: 0003-2697</identifier><identifier>EISSN: 1096-0309</identifier><identifier>DOI: 10.1016/j.ab.2006.03.052</identifier><identifier>PMID: 16701069</identifier><language>eng</language><publisher>United States: Elsevier Inc</publisher><subject>Alu Elements ; Binding Sites ; CCCTC-Binding Factor ; Chromatin Immunoprecipitation - methods ; Chromosome Mapping ; Chromosomes, Human, Pair 19 ; CTCF ; DNA, Intergenic ; DNA-Binding Proteins - analysis ; DNA-Binding Proteins - metabolism ; Electron Transport Complex IV - genetics ; Electrophoretic Mobility Shift Assay - methods ; HeLa Cells ; Human genome ; Humans ; Introns ; Mapping ; Membrane Glycoproteins - genetics ; Models, Genetic ; Neoplasm Proteins - genetics ; Repressor Proteins - analysis ; Repressor Proteins - metabolism ; Transcription factor</subject><ispartof>Analytical biochemistry, 2006-07, Vol.354 (1), p.85-93</ispartof><rights>2006 Elsevier Inc.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c379t-11537e4e35a1076c0833342c04cb149a45e474e92f5a895490849c1a5703b8813</citedby><cites>FETCH-LOGICAL-c379t-11537e4e35a1076c0833342c04cb149a45e474e92f5a895490849c1a5703b8813</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0003269706002442$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,27901,27902,65306</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/16701069$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Vetchinova, Anna S.</creatorcontrib><creatorcontrib>Akopov, Sergey B.</creatorcontrib><creatorcontrib>Chernov, Igor P.</creatorcontrib><creatorcontrib>Nikolaev, Lev G.</creatorcontrib><creatorcontrib>Sverdlov, Eugene D.</creatorcontrib><title>Two-dimensional electrophoretic mobility shift assay: Identification and mapping of transcription factor CTCF target sequences within an FXYD5– COX7A1 region of human chromosome 19</title><title>Analytical biochemistry</title><addtitle>Anal Biochem</addtitle><description>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.</description><subject>Alu Elements</subject><subject>Binding Sites</subject><subject>CCCTC-Binding Factor</subject><subject>Chromatin Immunoprecipitation - methods</subject><subject>Chromosome Mapping</subject><subject>Chromosomes, Human, Pair 19</subject><subject>CTCF</subject><subject>DNA, Intergenic</subject><subject>DNA-Binding Proteins - analysis</subject><subject>DNA-Binding Proteins - metabolism</subject><subject>Electron Transport Complex IV - genetics</subject><subject>Electrophoretic Mobility Shift Assay - methods</subject><subject>HeLa Cells</subject><subject>Human genome</subject><subject>Humans</subject><subject>Introns</subject><subject>Mapping</subject><subject>Membrane Glycoproteins - genetics</subject><subject>Models, Genetic</subject><subject>Neoplasm Proteins - genetics</subject><subject>Repressor Proteins - analysis</subject><subject>Repressor Proteins - metabolism</subject><subject>Transcription factor</subject><issn>0003-2697</issn><issn>1096-0309</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2006</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkc9u1DAQhyMEokvhzgn5xC1hHDt_3Fu1sKVSpV4WqZwsx5lsvEriYHup9sY78C48UJ8Eh12JE-I0h_l-P43mS5K3FDIKtPywz1ST5QBlBiyDIn-WrCiIMgUG4nmyAgCW5qWoLpJX3u8BKOVF-TK5oGUFFEqxSn5tH23amhEnb-ykBoID6uDs3FuHwWgy2sYMJhyJ700XiPJeHa_IbYtTMJ3RKsQYUVNLRjXPZtoR25Hg1OS1M_OfZad0sI6st-sNCcrtMBCP3w44afTk0YTeLAVk8_D1Y_H04ydZ3z9U15Q43C3pWNcfxrjXvbOj9XZEQsXr5EWnBo9vzvMy-bL5tF1_Tu_ub27X13epZpUIKaUFq5AjKxSFqtRQM8Z4roHrhnKheIG84ijyrlC1KLiAmgtNVVEBa-qassvk_al3djae7IMcjdc4DGpCe_CyrIGLksF_QVrRWtSQRxBOoHbWe4ednJ0ZlTtKCnKRKvdSNXKRKoHJKDVG3p27D82I7d_A2WIErk4Axld8N-ik12b5b2tctClba_7d_hvvf7MD</recordid><startdate>20060701</startdate><enddate>20060701</enddate><creator>Vetchinova, Anna S.</creator><creator>Akopov, Sergey B.</creator><creator>Chernov, Igor P.</creator><creator>Nikolaev, Lev G.</creator><creator>Sverdlov, Eugene D.</creator><general>Elsevier Inc</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7TM</scope><scope>8FD</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20060701</creationdate><title>Two-dimensional electrophoretic mobility shift assay: Identification and mapping of transcription factor CTCF target sequences within an FXYD5– COX7A1 region of human chromosome 19</title><author>Vetchinova, Anna S. ; Akopov, Sergey B. ; Chernov, Igor P. ; Nikolaev, Lev G. ; Sverdlov, Eugene D.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c379t-11537e4e35a1076c0833342c04cb149a45e474e92f5a895490849c1a5703b8813</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2006</creationdate><topic>Alu Elements</topic><topic>Binding Sites</topic><topic>CCCTC-Binding Factor</topic><topic>Chromatin Immunoprecipitation - methods</topic><topic>Chromosome Mapping</topic><topic>Chromosomes, Human, Pair 19</topic><topic>CTCF</topic><topic>DNA, Intergenic</topic><topic>DNA-Binding Proteins - analysis</topic><topic>DNA-Binding Proteins - metabolism</topic><topic>Electron Transport Complex IV - genetics</topic><topic>Electrophoretic Mobility Shift Assay - methods</topic><topic>HeLa Cells</topic><topic>Human genome</topic><topic>Humans</topic><topic>Introns</topic><topic>Mapping</topic><topic>Membrane Glycoproteins - genetics</topic><topic>Models, Genetic</topic><topic>Neoplasm Proteins - genetics</topic><topic>Repressor Proteins - analysis</topic><topic>Repressor Proteins - metabolism</topic><topic>Transcription factor</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Vetchinova, Anna S.</creatorcontrib><creatorcontrib>Akopov, Sergey B.</creatorcontrib><creatorcontrib>Chernov, Igor P.</creatorcontrib><creatorcontrib>Nikolaev, Lev G.</creatorcontrib><creatorcontrib>Sverdlov, Eugene D.</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Nucleic Acids Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Analytical biochemistry</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Vetchinova, Anna S.</au><au>Akopov, Sergey B.</au><au>Chernov, Igor P.</au><au>Nikolaev, Lev G.</au><au>Sverdlov, Eugene D.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Two-dimensional electrophoretic mobility shift assay: Identification and mapping of transcription factor CTCF target sequences within an FXYD5– COX7A1 region of human chromosome 19</atitle><jtitle>Analytical biochemistry</jtitle><addtitle>Anal Biochem</addtitle><date>2006-07-01</date><risdate>2006</risdate><volume>354</volume><issue>1</issue><spage>85</spage><epage>93</epage><pages>85-93</pages><issn>0003-2697</issn><eissn>1096-0309</eissn><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.</abstract><cop>United States</cop><pub>Elsevier Inc</pub><pmid>16701069</pmid><doi>10.1016/j.ab.2006.03.052</doi><tpages>9</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0003-2697 |
| ispartof | Analytical biochemistry, 2006-07, Vol.354 (1), p.85-93 |
| issn | 0003-2697 1096-0309 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_68049630 |
| source | MEDLINE; Elsevier ScienceDirect Journals |
| subjects | Alu Elements Binding Sites CCCTC-Binding Factor Chromatin Immunoprecipitation - methods Chromosome Mapping Chromosomes, Human, Pair 19 CTCF DNA, Intergenic DNA-Binding Proteins - analysis DNA-Binding Proteins - metabolism Electron Transport Complex IV - genetics Electrophoretic Mobility Shift Assay - methods HeLa Cells Human genome Humans Introns Mapping Membrane Glycoproteins - genetics Models, Genetic Neoplasm Proteins - genetics Repressor Proteins - analysis Repressor Proteins - metabolism Transcription factor |
| title | Two-dimensional electrophoretic mobility shift assay: Identification and mapping of transcription factor CTCF target sequences within an FXYD5– COX7A1 region of human chromosome 19 |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-29T10%3A21%3A27IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Two-dimensional%20electrophoretic%20mobility%20shift%20assay:%20Identification%20and%20mapping%20of%20transcription%20factor%20CTCF%20target%20sequences%20within%20an%20FXYD5%E2%80%93%20COX7A1%20region%20of%20human%20chromosome%2019&rft.jtitle=Analytical%20biochemistry&rft.au=Vetchinova,%20Anna%20S.&rft.date=2006-07-01&rft.volume=354&rft.issue=1&rft.spage=85&rft.epage=93&rft.pages=85-93&rft.issn=0003-2697&rft.eissn=1096-0309&rft_id=info:doi/10.1016/j.ab.2006.03.052&rft_dat=%3Cproquest_cross%3E68049630%3C/proquest_cross%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=17189802&rft_id=info:pmid/16701069&rft_els_id=S0003269706002442&rfr_iscdi=true |