Next‐Generation Sequencing Library Preparation from FFPE Tissue Samples
Formalin‐fixed, paraffin‐embedded (FFPE) tissue samples represent an invaluable biobank for retrospective cancer research with molecular methods such as real‐time PCR and next‐generation sequencing (NGS). However, the usage of FFPE material in NGS approaches involves several challenges associated wi...
Gespeichert in:
| Veröffentlicht in: | Current protocols in molecular biology (Print) 2016-01, Vol.113 (1), p.7.24.1-7.24.14 |
|---|---|
| Hauptverfasser: | , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 7.24.14 |
|---|---|
| container_issue | 1 |
| container_start_page | 7.24.1 |
| container_title | Current protocols in molecular biology (Print) |
| container_volume | 113 |
| creator | Wolf, Kathrin O'Neil, Dominic Schroeer, Stefanie Fang, Nan |
| description | Formalin‐fixed, paraffin‐embedded (FFPE) tissue samples represent an invaluable biobank for retrospective cancer research with molecular methods such as real‐time PCR and next‐generation sequencing (NGS). However, the usage of FFPE material in NGS approaches involves several challenges associated with the limited quantity and quality of DNA. This protocol describes how to purify DNA from FFPE material and how to prepare it for downstream NGS workflows including fragmentation, size selection, and library preparation for Illumina MiSeq/HiSeq sequencing. © 2016 by John Wiley & Sons, Inc. |
| doi_str_mv | 10.1002/0471142727.mb0724s113 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_2319197333</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2319197333</sourcerecordid><originalsourceid>FETCH-LOGICAL-c2244-37dd37fd44549679ce64036df9bf9f182f9a0c64f6d418fc0c334f06bec902c3</originalsourceid><addsrcrecordid>eNqNUE1PAjEQbYxGDPITNHv0Arad0tJ4UgJIgkoC92a3OzVr9gNbNsrNn-Bv9Je4BISrc5mZzHtvZh4hV4z2GKX8lgrFmOCKq16RUMVFYAxOyAXTILoghTo91KBbpBPCG214cgCsr89JC5hSoBlckOkzfq5_vr4nWKKP11lVRgt8r7G0WfkazbLEx34TzT2u4v3Y-aqIxuP5KFpmIdQYLeJilWO4JGcuzgN29rlNluPRcvjYnb1MpsP7WddyLpqLVJqCcqkQfaGl0haloCBTpxOnHRtwp2NqpXAyFWzgLLUAwlGZoNWUW2iTm53sylfNnWFtiixYzPO4xKoOhgPTTCtook36O6j1VQgenVn5rGj-MYyarY_m6KM5-tjwrvcr6qTA9MD6c60B3O0AH1mOm_-pmuH86WHbwC-Avn_X</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2319197333</pqid></control><display><type>article</type><title>Next‐Generation Sequencing Library Preparation from FFPE Tissue Samples</title><source>Alma/SFX Local Collection</source><creator>Wolf, Kathrin ; O'Neil, Dominic ; Schroeer, Stefanie ; Fang, Nan</creator><creatorcontrib>Wolf, Kathrin ; O'Neil, Dominic ; Schroeer, Stefanie ; Fang, Nan</creatorcontrib><description>Formalin‐fixed, paraffin‐embedded (FFPE) tissue samples represent an invaluable biobank for retrospective cancer research with molecular methods such as real‐time PCR and next‐generation sequencing (NGS). However, the usage of FFPE material in NGS approaches involves several challenges associated with the limited quantity and quality of DNA. This protocol describes how to purify DNA from FFPE material and how to prepare it for downstream NGS workflows including fragmentation, size selection, and library preparation for Illumina MiSeq/HiSeq sequencing. © 2016 by John Wiley & Sons, Inc.</description><identifier>ISSN: 1934-3639</identifier><identifier>EISSN: 1934-3647</identifier><identifier>DOI: 10.1002/0471142727.mb0724s113</identifier><identifier>PMID: 31773913</identifier><language>eng</language><publisher>United States</publisher><subject>formalin‐fixed paraffin‐embedded tissue ; fragmentation ; illumina ; library preparation ; next‐generation sequencing</subject><ispartof>Current protocols in molecular biology (Print), 2016-01, Vol.113 (1), p.7.24.1-7.24.14</ispartof><rights>Copyright © 2016 John Wiley & Sons, Inc.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c2244-37dd37fd44549679ce64036df9bf9f182f9a0c64f6d418fc0c334f06bec902c3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>315,781,785,27929,27930</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31773913$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Wolf, Kathrin</creatorcontrib><creatorcontrib>O'Neil, Dominic</creatorcontrib><creatorcontrib>Schroeer, Stefanie</creatorcontrib><creatorcontrib>Fang, Nan</creatorcontrib><title>Next‐Generation Sequencing Library Preparation from FFPE Tissue Samples</title><title>Current protocols in molecular biology (Print)</title><addtitle>Curr Protoc Mol Biol</addtitle><description>Formalin‐fixed, paraffin‐embedded (FFPE) tissue samples represent an invaluable biobank for retrospective cancer research with molecular methods such as real‐time PCR and next‐generation sequencing (NGS). However, the usage of FFPE material in NGS approaches involves several challenges associated with the limited quantity and quality of DNA. This protocol describes how to purify DNA from FFPE material and how to prepare it for downstream NGS workflows including fragmentation, size selection, and library preparation for Illumina MiSeq/HiSeq sequencing. © 2016 by John Wiley & Sons, Inc.</description><subject>formalin‐fixed paraffin‐embedded tissue</subject><subject>fragmentation</subject><subject>illumina</subject><subject>library preparation</subject><subject>next‐generation sequencing</subject><issn>1934-3639</issn><issn>1934-3647</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2016</creationdate><recordtype>article</recordtype><recordid>eNqNUE1PAjEQbYxGDPITNHv0Arad0tJ4UgJIgkoC92a3OzVr9gNbNsrNn-Bv9Je4BISrc5mZzHtvZh4hV4z2GKX8lgrFmOCKq16RUMVFYAxOyAXTILoghTo91KBbpBPCG214cgCsr89JC5hSoBlckOkzfq5_vr4nWKKP11lVRgt8r7G0WfkazbLEx34TzT2u4v3Y-aqIxuP5KFpmIdQYLeJilWO4JGcuzgN29rlNluPRcvjYnb1MpsP7WddyLpqLVJqCcqkQfaGl0haloCBTpxOnHRtwp2NqpXAyFWzgLLUAwlGZoNWUW2iTm53sylfNnWFtiixYzPO4xKoOhgPTTCtook36O6j1VQgenVn5rGj-MYyarY_m6KM5-tjwrvcr6qTA9MD6c60B3O0AH1mOm_-pmuH86WHbwC-Avn_X</recordid><startdate>201601</startdate><enddate>201601</enddate><creator>Wolf, Kathrin</creator><creator>O'Neil, Dominic</creator><creator>Schroeer, Stefanie</creator><creator>Fang, Nan</creator><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope></search><sort><creationdate>201601</creationdate><title>Next‐Generation Sequencing Library Preparation from FFPE Tissue Samples</title><author>Wolf, Kathrin ; O'Neil, Dominic ; Schroeer, Stefanie ; Fang, Nan</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c2244-37dd37fd44549679ce64036df9bf9f182f9a0c64f6d418fc0c334f06bec902c3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2016</creationdate><topic>formalin‐fixed paraffin‐embedded tissue</topic><topic>fragmentation</topic><topic>illumina</topic><topic>library preparation</topic><topic>next‐generation sequencing</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Wolf, Kathrin</creatorcontrib><creatorcontrib>O'Neil, Dominic</creatorcontrib><creatorcontrib>Schroeer, Stefanie</creatorcontrib><creatorcontrib>Fang, Nan</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Current protocols in molecular biology (Print)</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Wolf, Kathrin</au><au>O'Neil, Dominic</au><au>Schroeer, Stefanie</au><au>Fang, Nan</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Next‐Generation Sequencing Library Preparation from FFPE Tissue Samples</atitle><jtitle>Current protocols in molecular biology (Print)</jtitle><addtitle>Curr Protoc Mol Biol</addtitle><date>2016-01</date><risdate>2016</risdate><volume>113</volume><issue>1</issue><spage>7.24.1</spage><epage>7.24.14</epage><pages>7.24.1-7.24.14</pages><issn>1934-3639</issn><eissn>1934-3647</eissn><abstract>Formalin‐fixed, paraffin‐embedded (FFPE) tissue samples represent an invaluable biobank for retrospective cancer research with molecular methods such as real‐time PCR and next‐generation sequencing (NGS). However, the usage of FFPE material in NGS approaches involves several challenges associated with the limited quantity and quality of DNA. This protocol describes how to purify DNA from FFPE material and how to prepare it for downstream NGS workflows including fragmentation, size selection, and library preparation for Illumina MiSeq/HiSeq sequencing. © 2016 by John Wiley & Sons, Inc.</abstract><cop>United States</cop><pmid>31773913</pmid><doi>10.1002/0471142727.mb0724s113</doi><tpages>14</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1934-3639 |
| ispartof | Current protocols in molecular biology (Print), 2016-01, Vol.113 (1), p.7.24.1-7.24.14 |
| issn | 1934-3639 1934-3647 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_2319197333 |
| source | Alma/SFX Local Collection |
| subjects | formalin‐fixed paraffin‐embedded tissue fragmentation illumina library preparation next‐generation sequencing |
| title | Next‐Generation Sequencing Library Preparation from FFPE Tissue Samples |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2024-12-11T11%3A56%3A32IST&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=Next%E2%80%90Generation%20Sequencing%20Library%20Preparation%20from%20FFPE%20Tissue%20Samples&rft.jtitle=Current%20protocols%20in%20molecular%20biology%20(Print)&rft.au=Wolf,%20Kathrin&rft.date=2016-01&rft.volume=113&rft.issue=1&rft.spage=7.24.1&rft.epage=7.24.14&rft.pages=7.24.1-7.24.14&rft.issn=1934-3639&rft.eissn=1934-3647&rft_id=info:doi/10.1002/0471142727.mb0724s113&rft_dat=%3Cproquest_cross%3E2319197333%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=2319197333&rft_id=info:pmid/31773913&rfr_iscdi=true |