| |  Online-Ressource |
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| Verfasst von: | Schönung, Maximilian [VerfasserIn]  |
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| | Hess, Jana [VerfasserIn] |
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| | Bawidamann, Pascal [VerfasserIn] |
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| | Stäble, Sina [VerfasserIn] |
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| | Hey, Joschka [VerfasserIn] |
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| | Langstein, Jens [VerfasserIn] |
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| | Assenov, Yassen [VerfasserIn] |
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| | Weichenhan, Dieter [VerfasserIn] |
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| | Lutsik, Pavlo [VerfasserIn] |
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| | Lipka, Daniel [VerfasserIn] |
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| Titel: | AmpliconDesign |
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| Titelzusatz: | an interactive web server for the design of high-throughput targeted DNA methylation assays |
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| Verf.angabe: | Maximilian Schönung, Jana Hess, Pascal Bawidamann, Sina Stäble, Joschka Hey, Jens Langstein, Yassen Assenov, Dieter Weichenhan, Pavlo Lutsik, and Daniel B. Lipka |
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| Jahr: | 2021 |
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| Umfang: | 7 S. |
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| Illustrationen: | Illustrationen |
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| Fussnoten: | "Published online: 24 Oct 2020".- Artikelvorschau ; Gesehen am 15.08.2024 |
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| Titel Quelle: | Enthalten in: Epigenetics |
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| Ort Quelle: | Austin, Tex. : Landes Bioscience, 2006 |
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| Jahr Quelle: | 2021 |
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| Band/Heft Quelle: | 16(2021), 9, Seite 933-939 |
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| ISSN Quelle: | 1559-2308 |
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| Abstract: | Targeted analysis of DNA methylation patterns based on bisulfite-treated genomic DNA (BT-DNA) is considered as a gold-standard for epigenetic biomarker development. Existing software tools facilitate primer design, primer quality control or visualization of primer localization. However, high-throughput design of primers for BT-DNA amplification is hampered by limits in throughput and functionality of existing tools, requiring users to repeatedly perform specific tasks manually. Consequently, the design of PCR primers for BT-DNA remains a tedious and time-consuming process. To bridge this gap, we developed AmpliconDesign, a webserver providing a scalable and user-friendly platform for the design and analysis of targeted DNA methylation studies based on BT-DNA, e.g. deep amplicon bisulfite sequencing (ampBS-seq) or EpiTYPER MassArray. Core functionality of the web server includes high-throughput primer design and binding site validation based on in silico bisulfite-converted DNA sequences, prediction of fragmentation patterns for EpiTYPER MassArray, an interactive quality control as well as a streamlined analysis workflow for ampBS-seq. |
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| DOI: | doi:10.1080/15592294.2020.1834921 |
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| URL: | Bitte beachten Sie: Dies ist ein Bibliographieeintrag. Ein Volltextzugriff für Mitglieder der Universität besteht hier nur, falls für die entsprechende Zeitschrift/den entsprechenden Sammelband ein Abonnement besteht oder es sich um einen OpenAccess-Titel handelt.
kostenfrei: Volltext: https://doi.org/10.1080/15592294.2020.1834921 |
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| | kostenfrei: Volltext: https://www.tandfonline.com/doi/full/10.1080/15592294.2020.1834921 |
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| | DOI: https://doi.org/10.1080/15592294.2020.1834921 |
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| Datenträger: | Online-Ressource |
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| Sprache: | eng |
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| Sach-SW: | analysis pipeline |
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| | bisulfite sequencing |
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| | DNA methylation |
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| | epityper |
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| | massarray |
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| | primer design |
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| | targeted sequencing |
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| K10plus-PPN: | 1898775818 |
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| Verknüpfungen: | → Zeitschrift |
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