{"id":9618,"date":"2015-01-12T20:08:15","date_gmt":"2015-01-12T20:08:15","guid":{"rendered":"http:\/\/admin.acceleratingscience.com\/behindthebench\/?p=9618"},"modified":"2016-12-06T20:23:43","modified_gmt":"2016-12-06T20:23:43","slug":"highly-multiplexed-pcr-from-any-genomic-reference-sequence","status":"publish","type":"post","link":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/highly-multiplexed-pcr-from-any-genomic-reference-sequence\/","title":{"rendered":"Highly multiplexed PCR from any genomic reference sequence"},"content":{"rendered":"
\n

You may be familiar with the Ion AmpliSeq\u2122 Panels<\/a> for highly multiplexed, single-tube PCR for next-generation sequencing target selection for human or mouse genes. You also may be familiar with the online AmpliSeq.com tool<\/a> for making custom designs, as well as accessing gene lists and target coordinates for the standard research panels<\/a> that are offered.\u00a0 \"gbs.PNG\"<\/a><\/p>\n

But did you realize that there are now several additional reference genomes to design a custom research panel from? Reference genomes of important livestock and grain species, including cattle (cow), chicken, pig, sheep, dog, Chinese hamster, corn, rice, soybean and tomato, have been uploaded as \u2018Extended Genomes\u2019, preloaded into AmpliSeq.com.<\/p>\n

Here\u2019s a PDF brochure with additional details and specifications for the Ion AmpliSeq\u2122 DNA Custom Panels<\/a>. If you think you may need additional support (for example, with a low-quality, partially-complete reference from a non-model organism) a new premium service called Ion AmpliSeq\u2122 Assist<\/a> is now available.<\/p>\n

Lastly if you are not familiar with what Ion AmpliSeq\u2122 has to offer, here\u2019s an introductory video of how Ion AmpliSeq\u2122 panels work<\/a>.<\/p>\n

Is there additional capability in the AmpliSeq\u2122 design that you would like to see? Feel free to add any requests to the comments below.<\/p>\n<\/div>\n","protected":false},"excerpt":{"rendered":"

You may be familiar with the Ion AmpliSeq\u2122 Panels for highly multiplexed, single-tube PCR for next-generation sequencing target selection for human or mouse genes. You also may be familiar with the online AmpliSeq.com tool for making custom designs, as well as accessing gene lists and target coordinates for the standard research panels that are offered.\u00a0<\/p>\n","protected":false},"author":120,"featured_media":9619,"comment_status":"open","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"_kad_blocks_custom_css":"","_kad_blocks_head_custom_js":"","_kad_blocks_body_custom_js":"","_kad_blocks_footer_custom_js":"","_monsterinsights_skip_tracking":false,"_genesis_hide_title":false,"_genesis_hide_breadcrumbs":false,"_genesis_hide_singular_image":false,"_genesis_hide_footer_widgets":false,"_genesis_custom_body_class":"","_genesis_custom_post_class":"","_genesis_layout":"","_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"footnotes":""},"categories":[101],"tags":[167,11,6,156],"division":[],"class_list":{"0":"post-9618","1":"post","2":"type-post","3":"status-publish","4":"format-standard","5":"has-post-thumbnail","7":"category-product-news","8":"tag-array-plates-assays","9":"tag-ion-torrent","10":"tag-next-generation-sequencing","11":"tag-targeted-dna-sequencing","12":"entry"},"_selected_authors":"","_selected_reviewers":"","acf":[],"yoast_head":"\nHighly multiplexed PCR from any genomic reference sequence - Behind the Bench<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.thermofisher.com\/blog\/behindthebench\/highly-multiplexed-pcr-from-any-genomic-reference-sequence\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Highly multiplexed PCR from any genomic reference sequence\" \/>\n<meta property=\"og:description\" content=\"You may be familiar with the Ion AmpliSeq\u2122 Panels for highly multiplexed, single-tube PCR for next-generation sequencing target selection for human or mouse genes. 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evaluate DNA and RNA concentration and purity before downstream applications such as PCR, qPCR, and next-generation sequencing (NGS). A standardized workflow combining reliable extraction, concentration and purity assessment, application-appropriate quantification, and consistent laboratory practices can help identify sample issues early, improve reproducibility,\u2026","rel":"","context":"In "General"","block_context":{"text":"General","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/general\/"},"img":{"alt_text":"Close-up shot of a dna sequence on a screen, a digital representation of genetic code, used for analysis.","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/iStock-2212923489_dnasequence-scaled.jpg?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/iStock-2212923489_dnasequence-scaled.jpg?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/iStock-2212923489_dnasequence-scaled.jpg?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/iStock-2212923489_dnasequence-scaled.jpg?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/iStock-2212923489_dnasequence-scaled.jpg?resize=1050%2C600&ssl=1 3x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/iStock-2212923489_dnasequence-scaled.jpg?resize=1400%2C800&ssl=1 4x"},"classes":[]},{"id":19883,"url":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/building-a-better-sample-qc-workflow-from-extraction-to-sequencing\/","url_meta":{"origin":9618,"position":1},"title":"Building a Better Sample QC Workflow: From Extraction to Sequencing","author":"Marlene Gasdia-Cochrane","date":"August 25, 2026","format":false,"excerpt":"Article Summary Successful genomics experiments don't begin with sequencing\u2014they begin with sample quality. Every downstream application, from PCR to next-generation sequencing (NGS), depends on starting with nucleic acids that are accurately quantified and free from contaminants that could compromise results. Establishing a consistent quality control workflow helps laboratories improve reproducibility\u2026","rel":"","context":"In "General"","block_context":{"text":"General","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/general\/"},"img":{"alt_text":"A pipette drops a liquid into a petri dish with a dna sequence background, science concept. 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A Q&A with Dr. Javier Hernandez Losa, Director of the Molecular Biology Laboratory, Department of Pathology, Hospital Universitario Vall d\u2019Hebron, Barcelona Cancer research increasingly\u2026","rel":"","context":"In "Cancer Research"","block_context":{"text":"Cancer Research","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/cancer-research\/"},"img":{"alt_text":"Dr. Javier Hernandez Losa, Director of the Molecular Biology Laboratory at Hospital Universitario Vall d'Hebron in Barcelona.","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/Picture133.jpg?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/Picture133.jpg?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/Picture133.jpg?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/Picture133.jpg?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/09\/Picture133.jpg?resize=1050%2C600&ssl=1 3x"},"classes":[]},{"id":19888,"url":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/streptococcus-pneumoniae-serotype-identification-qpcr-nested-pcr\/","url_meta":{"origin":9618,"position":3},"title":"qPCR, Nested PCR, and the Search for Bacterial Serotypes","author":"Ashleigh Barlow","date":"August 5, 2026","format":false,"excerpt":"Article Summary In this episode of Absolute Gene-ius, Donna Paznar, former Head of Molecular Infection Diagnostics at the Medical University of Vienna, discusses her research on Streptococcus pneumoniae and its impact across the Austrian population. She explains why children can act as asymptomatic reservoirs, why tracking bacterial serotypes matters, and\u2026","rel":"","context":"In "Infectious Diseases"","block_context":{"text":"Infectious Diseases","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/infectious-diseases\/"},"img":{"alt_text":"Donna Paznar discussing molecular methods for identifying Streptococcus pneumoniae serotypes.","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/Paznar_Headshot_Jordan-Ruggieri-scaled.jpg?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/Paznar_Headshot_Jordan-Ruggieri-scaled.jpg?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/Paznar_Headshot_Jordan-Ruggieri-scaled.jpg?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/Paznar_Headshot_Jordan-Ruggieri-scaled.jpg?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/Paznar_Headshot_Jordan-Ruggieri-scaled.jpg?resize=1050%2C600&ssl=1 3x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/Paznar_Headshot_Jordan-Ruggieri-scaled.jpg?resize=1400%2C800&ssl=1 4x"},"classes":[]},{"id":19885,"url":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/sanger-sequencing-mix-dna-templates\/","url_meta":{"origin":9618,"position":4},"title":"Advancing the Gold Standard: Faster, Smarter, and Built for Challenging Templates","author":"Behind The Bench Staff","date":"August 5, 2026","format":false,"excerpt":"Sanger sequencing has long been the gold standard for accuracy, trusted by laboratories worldwide for applications ranging from plasmid verification to confirming next-generation sequencing results. Yet as research evolves, so do the demands placed on sequencing workflows. Today\u2019s labs are not only looking for accuracy\u2014they need speed, flexibility, and reliable\u2026","rel":"","context":"In "General"","block_context":{"text":"General","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/general\/"},"img":{"alt_text":"DNA sequencing sample tube with DNA helix and sequencing chromatogram representing Sanger sequencing workflow.","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=1050%2C600&ssl=1 3x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=1400%2C800&ssl=1 4x"},"classes":[]},{"id":19223,"url":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/innovations-in-qpcr-technology\/","url_meta":{"origin":9618,"position":5},"title":"Innovations in qPCR Technology: What Researchers Need to Know","author":"Ashleigh Barlow","date":"October 29, 2025","format":false,"excerpt":"https:\/\/youtu.be\/z9Kb1xAnNcg?si=TVUIc8rUxZUOhCqA Real-time PCR, also known as quantitative polymerase chain reaction (qPCR) technology, has been a cornerstone of molecular biology research for decades. With continuous advancements, qPCR remains a critical tool for researchers worldwide. Damien Luk, Senior Director of Product Management at Thermo Fisher Scientific, shared his insights on the future\u2026","rel":"","context":"In "Developmental Biology"","block_context":{"text":"Developmental Biology","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/developmental-biology\/"},"img":{"alt_text":"A lineup of Thermo Fisher Scientific QuantStudio real-time PCR systems, including QuantStudio 3, 5, 6 Pro, 7 Pro, and 12K Flex instruments, displayed against a blue gradient background.","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/qPCR-Blog-Cover-Image.jpg?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/qPCR-Blog-Cover-Image.jpg?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/qPCR-Blog-Cover-Image.jpg?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/qPCR-Blog-Cover-Image.jpg?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/qPCR-Blog-Cover-Image.jpg?resize=1050%2C600&ssl=1 3x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/qPCR-Blog-Cover-Image.jpg?resize=1400%2C800&ssl=1 4x"},"classes":[]}],"jetpack_sharing_enabled":true,"jetpack_featured_media_url":"https:\/\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2016\/12\/gbs.png","_links":{"self":[{"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/posts\/9618","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/users\/120"}],"replies":[{"embeddable":true,"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/comments?post=9618"}],"version-history":[{"count":0,"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/posts\/9618\/revisions"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/media\/9619"}],"wp:attachment":[{"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/media?parent=9618"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/categories?post=9618"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/tags?post=9618"},{"taxonomy":"division","embeddable":true,"href":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/wp-json\/wp\/v2\/division?post=9618"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}