Automatic matrix determination in four dye fluorescence-based DNA sequencing
The four dye fluorescence detection strategy is a widely used approach to automated DNA sequence analysis. An important aspect of data processing in this approach is the multicomponent analysis to deduce the concentrations of four fluorophores from fluorescence emission intensities at four different...
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| Veröffentlicht in: | Electrophoresis 1996, Vol.17 (6), p.1143-1150 |
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| container_title | Electrophoresis |
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| creator | Yin, Zhongbin Severin, Jessica Giddings, Michael C. Huang, Wei-an Westphall, Michael S. Smith, Lloyd M. |
| description | The four dye fluorescence detection strategy is a widely used approach to automated DNA sequence analysis. An important aspect of data processing in this approach is the multicomponent analysis to deduce the concentrations of four fluorophores from fluorescence emission intensities at four different wave‐lengths. This requires knowledge of the correct transformation matrix M. The matrix M is a function both of the fluorophores employed and the fluorescence detection system. M is typically determined either by a calibration process with individual dyes, or by choosing four well‐separated individual peaks corresponding to the four different dyes. Both are time‐consuming and complicated procedures for routine use. An automatic scheme for finding M directly from raw sequence data is presented here. This facilitates data analysis and the underlying algorithm may also find utility in other multispectral applications. |
| doi_str_mv | 10.1002/elps.1150170626 |
| format | Article |
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An important aspect of data processing in this approach is the multicomponent analysis to deduce the concentrations of four fluorophores from fluorescence emission intensities at four different wave‐lengths. This requires knowledge of the correct transformation matrix M. The matrix M is a function both of the fluorophores employed and the fluorescence detection system. M is typically determined either by a calibration process with individual dyes, or by choosing four well‐separated individual peaks corresponding to the four different dyes. Both are time‐consuming and complicated procedures for routine use. An automatic scheme for finding M directly from raw sequence data is presented here. This facilitates data analysis and the underlying algorithm may also find utility in other multispectral applications.</description><identifier>ISSN: 0173-0835</identifier><identifier>EISSN: 1522-2683</identifier><identifier>DOI: 10.1002/elps.1150170626</identifier><identifier>PMID: 8832184</identifier><language>eng</language><publisher>Hoboken: Wiley Subscription Services, Inc., A Wiley Company</publisher><subject>Algorithm ; Algorithms ; Automation ; DNA sequencing ; Fluorescent Dyes - chemistry ; Matrix ; Multicomponent analysis ; Sequence Analysis, DNA ; Spectrometry, Fluorescence - instrumentation</subject><ispartof>Electrophoresis, 1996, Vol.17 (6), p.1143-1150</ispartof><rights>Copyright © 1996 VCH Verlagsgesellschaft mbH</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c3826-d5b1d17d0672d31708d8e90158ae2213751fa87a92b887f50b1db2cdb763e40a3</citedby><cites>FETCH-LOGICAL-c3826-d5b1d17d0672d31708d8e90158ae2213751fa87a92b887f50b1db2cdb763e40a3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1002%2Felps.1150170626$$EPDF$$P50$$Gwiley$$H</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1002%2Felps.1150170626$$EHTML$$P50$$Gwiley$$H</linktohtml><link.rule.ids>314,780,784,1416,4021,27921,27922,27923,45572,45573</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/8832184$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Yin, Zhongbin</creatorcontrib><creatorcontrib>Severin, Jessica</creatorcontrib><creatorcontrib>Giddings, Michael C.</creatorcontrib><creatorcontrib>Huang, Wei-an</creatorcontrib><creatorcontrib>Westphall, Michael S.</creatorcontrib><creatorcontrib>Smith, Lloyd M.</creatorcontrib><title>Automatic matrix determination in four dye fluorescence-based DNA sequencing</title><title>Electrophoresis</title><addtitle>ELECTROPHORESIS</addtitle><description>The four dye fluorescence detection strategy is a widely used approach to automated DNA sequence analysis. An important aspect of data processing in this approach is the multicomponent analysis to deduce the concentrations of four fluorophores from fluorescence emission intensities at four different wave‐lengths. This requires knowledge of the correct transformation matrix M. The matrix M is a function both of the fluorophores employed and the fluorescence detection system. M is typically determined either by a calibration process with individual dyes, or by choosing four well‐separated individual peaks corresponding to the four different dyes. Both are time‐consuming and complicated procedures for routine use. An automatic scheme for finding M directly from raw sequence data is presented here. This facilitates data analysis and the underlying algorithm may also find utility in other multispectral applications.</description><subject>Algorithm</subject><subject>Algorithms</subject><subject>Automation</subject><subject>DNA sequencing</subject><subject>Fluorescent Dyes - chemistry</subject><subject>Matrix</subject><subject>Multicomponent analysis</subject><subject>Sequence Analysis, DNA</subject><subject>Spectrometry, Fluorescence - instrumentation</subject><issn>0173-0835</issn><issn>1522-2683</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1996</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFUMtOwzAQtBAISuHMCSknbmn9SGxXnKoCBRQeEq-j5cQbZMij2Ilo_x6jViBOXHal2ZnZ3UHoiOARwZiOoVr4ESEpJgJzyrfQgKSUxpRLto0GAWUxlizdQ_vev2GMk0mS7KJdKRklMhmgbNp3ba07W0ShOruMDHTgatsErG0i20Rl27vIrCAqq7514AtoCohz7cFEZ7fTyMNHHyDbvB6gnVJXHg43fYieLs4fZ5dxdje_mk2zuGCS8tikOTFEGMwFNSwcLo2ECSap1EApYSIlpZZCT2gupShTHOg5LUwuOIMEazZEJ2vfhWvDbt-p2oazqko30PZeCcm44AkLxPGaWLjWewelWjhba7dSBKvv_NR3fuo3v6A43lj3eQ3mh78JLMxP1_NPW8HqPzt1nt0__HGP12rrO1j-qLV7V1yEv9XL7VzdCPzMzq6FytgXSoiMBQ</recordid><startdate>1996</startdate><enddate>1996</enddate><creator>Yin, Zhongbin</creator><creator>Severin, Jessica</creator><creator>Giddings, Michael C.</creator><creator>Huang, Wei-an</creator><creator>Westphall, Michael S.</creator><creator>Smith, Lloyd M.</creator><general>Wiley Subscription Services, Inc., A Wiley Company</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>7X8</scope></search><sort><creationdate>1996</creationdate><title>Automatic matrix determination in four dye fluorescence-based DNA sequencing</title><author>Yin, Zhongbin ; Severin, Jessica ; Giddings, Michael C. ; Huang, Wei-an ; Westphall, Michael S. ; Smith, Lloyd M.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c3826-d5b1d17d0672d31708d8e90158ae2213751fa87a92b887f50b1db2cdb763e40a3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1996</creationdate><topic>Algorithm</topic><topic>Algorithms</topic><topic>Automation</topic><topic>DNA sequencing</topic><topic>Fluorescent Dyes - chemistry</topic><topic>Matrix</topic><topic>Multicomponent analysis</topic><topic>Sequence Analysis, DNA</topic><topic>Spectrometry, Fluorescence - instrumentation</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yin, Zhongbin</creatorcontrib><creatorcontrib>Severin, Jessica</creatorcontrib><creatorcontrib>Giddings, Michael C.</creatorcontrib><creatorcontrib>Huang, Wei-an</creatorcontrib><creatorcontrib>Westphall, Michael S.</creatorcontrib><creatorcontrib>Smith, Lloyd M.</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>MEDLINE - Academic</collection><jtitle>Electrophoresis</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yin, Zhongbin</au><au>Severin, Jessica</au><au>Giddings, Michael C.</au><au>Huang, Wei-an</au><au>Westphall, Michael S.</au><au>Smith, Lloyd M.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Automatic matrix determination in four dye fluorescence-based DNA sequencing</atitle><jtitle>Electrophoresis</jtitle><addtitle>ELECTROPHORESIS</addtitle><date>1996</date><risdate>1996</risdate><volume>17</volume><issue>6</issue><spage>1143</spage><epage>1150</epage><pages>1143-1150</pages><issn>0173-0835</issn><eissn>1522-2683</eissn><abstract>The four dye fluorescence detection strategy is a widely used approach to automated DNA sequence analysis. An important aspect of data processing in this approach is the multicomponent analysis to deduce the concentrations of four fluorophores from fluorescence emission intensities at four different wave‐lengths. This requires knowledge of the correct transformation matrix M. The matrix M is a function both of the fluorophores employed and the fluorescence detection system. M is typically determined either by a calibration process with individual dyes, or by choosing four well‐separated individual peaks corresponding to the four different dyes. Both are time‐consuming and complicated procedures for routine use. An automatic scheme for finding M directly from raw sequence data is presented here. This facilitates data analysis and the underlying algorithm may also find utility in other multispectral applications.</abstract><cop>Hoboken</cop><pub>Wiley Subscription Services, Inc., A Wiley Company</pub><pmid>8832184</pmid><doi>10.1002/elps.1150170626</doi><tpages>8</tpages></addata></record> |
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| ispartof | Electrophoresis, 1996, Vol.17 (6), p.1143-1150 |
| issn | 0173-0835 1522-2683 |
| language | eng |
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| source | MEDLINE; Wiley Online Library Journals Frontfile Complete |
| subjects | Algorithm Algorithms Automation DNA sequencing Fluorescent Dyes - chemistry Matrix Multicomponent analysis Sequence Analysis, DNA Spectrometry, Fluorescence - instrumentation |
| title | Automatic matrix determination in four dye fluorescence-based DNA sequencing |
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