Quantitative Methods of Analysis of Footprinting Diagrams for the Complexes Formed by a Ligand with a DNA Fragment of Known Sequence
: The regulation of gene expression is based on the interaction of DNA with different ligands. A model of adsorption was considered that can be applied to the quantitative analysis of footprinting diagrams for the complexes formed by a ligand with a DNA fragment of known structure. This model allows...
Gespeichert in:
| Veröffentlicht in: | Annals of the New York Academy of Sciences 2005-06, Vol.1048 (1), p.206-214 |
|---|---|
| Hauptverfasser: | , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 214 |
|---|---|
| container_issue | 1 |
| container_start_page | 206 |
| container_title | Annals of the New York Academy of Sciences |
| container_volume | 1048 |
| creator | NECHIPURENKO, YURII D. JOVANOVIĆ, BOŠKO RIABOKON, VADIM F. GURSKY, GEORGII V. |
| description | : The regulation of gene expression is based on the interaction of DNA with different ligands. A model of adsorption was considered that can be applied to the quantitative analysis of footprinting diagrams for the complexes formed by a ligand with a DNA fragment of known structure. This model allows the probabilities of ligand binding to DNA sites with a known sequence to be calculated and the variance of probabilities of ligand binding with a specified binding site to be estimated. The model was used for quantitative analysis of diagrams of DNAse footprinting for the complexes of the dimeric analogue of the antitumor antibiotic netropsin. Experimental and theoretically calculated profiles of distribution of netropsin bound on DNA are in good agreement with one another. |
| doi_str_mv | 10.1196/annals.1342.019 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_68569808</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>21132352</sourcerecordid><originalsourceid>FETCH-LOGICAL-c4756-210ddcd6045b7ccca9cf23853351ee3d15c19d21a48499e0e20ef00c1a1daa7d3</originalsourceid><addsrcrecordid>eNqFkUtvEzEURkcIRENhzQ55hdhM6rfHyyhtCmoIQgUKK8vx3EkG5hFshzR7fjhOJ4IdWdmWzvddXZ8se0nwmBAtL2zX2SaMCeN0jIl-lI2I4jqXktHH2QhjpfJCU3aWPQvhO8aEFlw9zc6IJIJrxkfZ749b28U62lj_AvQe4rovA-orNEnF-1A_3Gd9Hze-Tly3Qpe1XXnbBlT1HsU1oGnfbhq4h5A430KJlntk0bxe2a5Euzqu0-tyMUEzb1ctdPHQeNP1uw7dws8tdA6eZ0-qtAa8OJ7n2efZ1afp23z-4frddDLPHVdC5pTgsnSlxFwslXPOaldRVgjGBAFgJRGO6JISywuuNWCgGCqMHbGktFaV7Dx7PfRufJ8mh2jaOjhoGttBvw1GFkLqAhcnQUoIo0zQBL75L0ikUlpoWeDTqEgWlZYP4y8G1Pk-BA-VSb_fWr83BJuDdzN4NwfvJnlPiVfH8u0yKfjHH0UngA_Arm5gf6rPLL5NbimWKZYPsTpEuP8bs_6HkYopYe4W1-buRs-5-vrFLNgfrzLJ9g</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>1513479608</pqid></control><display><type>article</type><title>Quantitative Methods of Analysis of Footprinting Diagrams for the Complexes Formed by a Ligand with a DNA Fragment of Known Sequence</title><source>MEDLINE</source><source>Wiley Online Library Journals Frontfile Complete</source><creator>NECHIPURENKO, YURII D. ; JOVANOVIĆ, BOŠKO ; RIABOKON, VADIM F. ; GURSKY, GEORGII V.</creator><creatorcontrib>NECHIPURENKO, YURII D. ; JOVANOVIĆ, BOŠKO ; RIABOKON, VADIM F. ; GURSKY, GEORGII V.</creatorcontrib><description>: The regulation of gene expression is based on the interaction of DNA with different ligands. A model of adsorption was considered that can be applied to the quantitative analysis of footprinting diagrams for the complexes formed by a ligand with a DNA fragment of known structure. This model allows the probabilities of ligand binding to DNA sites with a known sequence to be calculated and the variance of probabilities of ligand binding with a specified binding site to be estimated. The model was used for quantitative analysis of diagrams of DNAse footprinting for the complexes of the dimeric analogue of the antitumor antibiotic netropsin. Experimental and theoretically calculated profiles of distribution of netropsin bound on DNA are in good agreement with one another.</description><identifier>ISSN: 0077-8923</identifier><identifier>EISSN: 1749-6632</identifier><identifier>DOI: 10.1196/annals.1342.019</identifier><identifier>PMID: 16154934</identifier><language>eng</language><publisher>Oxford, UK: Blackwell Publishing Ltd</publisher><subject>adsorption model ; Antibiotics, Antineoplastic - pharmacology ; Base Sequence ; Binding ; Binding Sites ; Control ; Deoxyribonucleic acid ; Dimerization ; DNA - chemistry ; DNA - metabolism ; DNA Footprinting - methods ; DNA-ligand complexes ; footprinting ; Fragmentation ; Gene sequencing ; ligand binding ; Ligands ; Mathematical models ; Models, Chemical ; netropsin ; Netropsin - analogs & derivatives ; Netropsin - metabolism ; Netropsin - pharmacology ; Quantitative analysis</subject><ispartof>Annals of the New York Academy of Sciences, 2005-06, Vol.1048 (1), p.206-214</ispartof><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4756-210ddcd6045b7ccca9cf23853351ee3d15c19d21a48499e0e20ef00c1a1daa7d3</citedby><cites>FETCH-LOGICAL-c4756-210ddcd6045b7ccca9cf23853351ee3d15c19d21a48499e0e20ef00c1a1daa7d3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1196%2Fannals.1342.019$$EPDF$$P50$$Gwiley$$H</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1196%2Fannals.1342.019$$EHTML$$P50$$Gwiley$$H</linktohtml><link.rule.ids>314,776,780,1411,27901,27902,45550,45551</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/16154934$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>NECHIPURENKO, YURII D.</creatorcontrib><creatorcontrib>JOVANOVIĆ, BOŠKO</creatorcontrib><creatorcontrib>RIABOKON, VADIM F.</creatorcontrib><creatorcontrib>GURSKY, GEORGII V.</creatorcontrib><title>Quantitative Methods of Analysis of Footprinting Diagrams for the Complexes Formed by a Ligand with a DNA Fragment of Known Sequence</title><title>Annals of the New York Academy of Sciences</title><addtitle>Ann N Y Acad Sci</addtitle><description>: The regulation of gene expression is based on the interaction of DNA with different ligands. A model of adsorption was considered that can be applied to the quantitative analysis of footprinting diagrams for the complexes formed by a ligand with a DNA fragment of known structure. This model allows the probabilities of ligand binding to DNA sites with a known sequence to be calculated and the variance of probabilities of ligand binding with a specified binding site to be estimated. The model was used for quantitative analysis of diagrams of DNAse footprinting for the complexes of the dimeric analogue of the antitumor antibiotic netropsin. Experimental and theoretically calculated profiles of distribution of netropsin bound on DNA are in good agreement with one another.</description><subject>adsorption model</subject><subject>Antibiotics, Antineoplastic - pharmacology</subject><subject>Base Sequence</subject><subject>Binding</subject><subject>Binding Sites</subject><subject>Control</subject><subject>Deoxyribonucleic acid</subject><subject>Dimerization</subject><subject>DNA - chemistry</subject><subject>DNA - metabolism</subject><subject>DNA Footprinting - methods</subject><subject>DNA-ligand complexes</subject><subject>footprinting</subject><subject>Fragmentation</subject><subject>Gene sequencing</subject><subject>ligand binding</subject><subject>Ligands</subject><subject>Mathematical models</subject><subject>Models, Chemical</subject><subject>netropsin</subject><subject>Netropsin - analogs & derivatives</subject><subject>Netropsin - metabolism</subject><subject>Netropsin - pharmacology</subject><subject>Quantitative analysis</subject><issn>0077-8923</issn><issn>1749-6632</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2005</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkUtvEzEURkcIRENhzQ55hdhM6rfHyyhtCmoIQgUKK8vx3EkG5hFshzR7fjhOJ4IdWdmWzvddXZ8se0nwmBAtL2zX2SaMCeN0jIl-lI2I4jqXktHH2QhjpfJCU3aWPQvhO8aEFlw9zc6IJIJrxkfZ749b28U62lj_AvQe4rovA-orNEnF-1A_3Gd9Hze-Tly3Qpe1XXnbBlT1HsU1oGnfbhq4h5A430KJlntk0bxe2a5Euzqu0-tyMUEzb1ctdPHQeNP1uw7dws8tdA6eZ0-qtAa8OJ7n2efZ1afp23z-4frddDLPHVdC5pTgsnSlxFwslXPOaldRVgjGBAFgJRGO6JISywuuNWCgGCqMHbGktFaV7Dx7PfRufJ8mh2jaOjhoGttBvw1GFkLqAhcnQUoIo0zQBL75L0ikUlpoWeDTqEgWlZYP4y8G1Pk-BA-VSb_fWr83BJuDdzN4NwfvJnlPiVfH8u0yKfjHH0UngA_Arm5gf6rPLL5NbimWKZYPsTpEuP8bs_6HkYopYe4W1-buRs-5-vrFLNgfrzLJ9g</recordid><startdate>200506</startdate><enddate>200506</enddate><creator>NECHIPURENKO, YURII D.</creator><creator>JOVANOVIĆ, BOŠKO</creator><creator>RIABOKON, VADIM F.</creator><creator>GURSKY, GEORGII V.</creator><general>Blackwell Publishing Ltd</general><scope>BSCLL</scope><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>7SP</scope><scope>7U5</scope><scope>8FD</scope><scope>L7M</scope><scope>7TM</scope><scope>7X8</scope></search><sort><creationdate>200506</creationdate><title>Quantitative Methods of Analysis of Footprinting Diagrams for the Complexes Formed by a Ligand with a DNA Fragment of Known Sequence</title><author>NECHIPURENKO, YURII D. ; JOVANOVIĆ, BOŠKO ; RIABOKON, VADIM F. ; GURSKY, GEORGII V.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4756-210ddcd6045b7ccca9cf23853351ee3d15c19d21a48499e0e20ef00c1a1daa7d3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2005</creationdate><topic>adsorption model</topic><topic>Antibiotics, Antineoplastic - pharmacology</topic><topic>Base Sequence</topic><topic>Binding</topic><topic>Binding Sites</topic><topic>Control</topic><topic>Deoxyribonucleic acid</topic><topic>Dimerization</topic><topic>DNA - chemistry</topic><topic>DNA - metabolism</topic><topic>DNA Footprinting - methods</topic><topic>DNA-ligand complexes</topic><topic>footprinting</topic><topic>Fragmentation</topic><topic>Gene sequencing</topic><topic>ligand binding</topic><topic>Ligands</topic><topic>Mathematical models</topic><topic>Models, Chemical</topic><topic>netropsin</topic><topic>Netropsin - analogs & derivatives</topic><topic>Netropsin - metabolism</topic><topic>Netropsin - pharmacology</topic><topic>Quantitative analysis</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>NECHIPURENKO, YURII D.</creatorcontrib><creatorcontrib>JOVANOVIĆ, BOŠKO</creatorcontrib><creatorcontrib>RIABOKON, VADIM F.</creatorcontrib><creatorcontrib>GURSKY, GEORGII V.</creatorcontrib><collection>Istex</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Electronics & Communications Abstracts</collection><collection>Solid State and Superconductivity Abstracts</collection><collection>Technology Research Database</collection><collection>Advanced Technologies Database with Aerospace</collection><collection>Nucleic Acids Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Annals of the New York Academy of Sciences</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>NECHIPURENKO, YURII D.</au><au>JOVANOVIĆ, BOŠKO</au><au>RIABOKON, VADIM F.</au><au>GURSKY, GEORGII V.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Quantitative Methods of Analysis of Footprinting Diagrams for the Complexes Formed by a Ligand with a DNA Fragment of Known Sequence</atitle><jtitle>Annals of the New York Academy of Sciences</jtitle><addtitle>Ann N Y Acad Sci</addtitle><date>2005-06</date><risdate>2005</risdate><volume>1048</volume><issue>1</issue><spage>206</spage><epage>214</epage><pages>206-214</pages><issn>0077-8923</issn><eissn>1749-6632</eissn><abstract>: The regulation of gene expression is based on the interaction of DNA with different ligands. A model of adsorption was considered that can be applied to the quantitative analysis of footprinting diagrams for the complexes formed by a ligand with a DNA fragment of known structure. This model allows the probabilities of ligand binding to DNA sites with a known sequence to be calculated and the variance of probabilities of ligand binding with a specified binding site to be estimated. The model was used for quantitative analysis of diagrams of DNAse footprinting for the complexes of the dimeric analogue of the antitumor antibiotic netropsin. Experimental and theoretically calculated profiles of distribution of netropsin bound on DNA are in good agreement with one another.</abstract><cop>Oxford, UK</cop><pub>Blackwell Publishing Ltd</pub><pmid>16154934</pmid><doi>10.1196/annals.1342.019</doi><tpages>9</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0077-8923 |
| ispartof | Annals of the New York Academy of Sciences, 2005-06, Vol.1048 (1), p.206-214 |
| issn | 0077-8923 1749-6632 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_68569808 |
| source | MEDLINE; Wiley Online Library Journals Frontfile Complete |
| subjects | adsorption model Antibiotics, Antineoplastic - pharmacology Base Sequence Binding Binding Sites Control Deoxyribonucleic acid Dimerization DNA - chemistry DNA - metabolism DNA Footprinting - methods DNA-ligand complexes footprinting Fragmentation Gene sequencing ligand binding Ligands Mathematical models Models, Chemical netropsin Netropsin - analogs & derivatives Netropsin - metabolism Netropsin - pharmacology Quantitative analysis |
| title | Quantitative Methods of Analysis of Footprinting Diagrams for the Complexes Formed by a Ligand with a DNA Fragment of Known Sequence |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-06T18%3A51%3A41IST&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=Quantitative%20Methods%20of%20Analysis%20of%20Footprinting%20Diagrams%20for%20the%20Complexes%20Formed%20by%20a%20Ligand%20with%20a%20DNA%20Fragment%20of%20Known%20Sequence&rft.jtitle=Annals%20of%20the%20New%20York%20Academy%20of%20Sciences&rft.au=NECHIPURENKO,%20YURII%20D.&rft.date=2005-06&rft.volume=1048&rft.issue=1&rft.spage=206&rft.epage=214&rft.pages=206-214&rft.issn=0077-8923&rft.eissn=1749-6632&rft_id=info:doi/10.1196/annals.1342.019&rft_dat=%3Cproquest_cross%3E21132352%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=1513479608&rft_id=info:pmid/16154934&rfr_iscdi=true |