Nanopore Sequencing of poliovirus isolates v1 Article Swipe
YOU?
·
· 2024
· Open Access
·
· DOI: https://doi.org/10.17504/protocols.io.14egn6beql5d/v1
This protocol is adapted from "Direct Detection of poliovirus and Nanopore Sequencing (DDNS) - Stool" to make it suitable for use with cell culture isolates in either a liquid form or that have been transported to the lab via FTA card. The protocol aims to amplify the VP1 region of poliovirus through a single PCR using the Q8/Y7 primer set. We use barcoded primers as this greatly simplifies the subsequent library preparation process. Primer sequences for the barcoded Q8/Y7 primers are found in Dataset S1 of Shaw et al (2020). This protocol is for use with Oxford Nanopore v14 chemistry sequencing reagents and can be used with the MinION Mk1B or GridION sequencer. Within the protocol steps, quality control checks are included and follow the workflow set out in the document "Quality Control and Data Recording for DDNS".
Related Topics
- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.17504/protocols.io.14egn6beql5d/v1
- https://www.protocols.io/view/nanopore-sequencing-of-poliovirus-isolates-da2t2gen.pdf
- OA Status
- gold
- Related Works
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- OpenAlex ID
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Raw OpenAlex JSON
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https://openalex.org/W4393970061Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.17504/protocols.io.14egn6beql5d/v1Digital Object Identifier
- Title
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Nanopore Sequencing of poliovirus isolates v1Work title
- Type
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preprintOpenAlex work type
- Language
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enPrimary language
- Publication year
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2024Year of publication
- Publication date
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2024-03-21Full publication date if available
- Authors
-
Catherine Troman, Erika Bujáki, Joyce Akello, Shannon Fitz, Alex Shaw, Javier Martín, Nick GrasslyList of authors in order
- Landing page
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https://doi.org/10.17504/protocols.io.14egn6beql5d/v1Publisher landing page
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https://www.protocols.io/view/nanopore-sequencing-of-poliovirus-isolates-da2t2gen.pdfDirect link to full text PDF
- Open access
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YesWhether a free full text is available
- OA status
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goldOpen access status per OpenAlex
- OA URL
-
https://www.protocols.io/view/nanopore-sequencing-of-poliovirus-isolates-da2t2gen.pdfDirect OA link when available
- Concepts
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Nanopore sequencing, Poliovirus, Nanopore, Computational biology, Virology, Biology, Computer science, Genetics, DNA sequencing, Nanotechnology, Materials science, Virus, DNATop concepts (fields/topics) attached by OpenAlex
- Cited by
-
0Total citation count in OpenAlex
- Related works (count)
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10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.culture | 23 |
| abstract_inverted_index.greatly | 66 |
| abstract_inverted_index.library | 70 |
| abstract_inverted_index.primers | 63, 79 |
| abstract_inverted_index.quality | 117 |
| abstract_inverted_index.through | 51 |
| abstract_inverted_index."Quality | 131 |
| abstract_inverted_index.Nanopore | 10, 97 |
| abstract_inverted_index.barcoded | 62, 77 |
| abstract_inverted_index.document | 130 |
| abstract_inverted_index.included | 121 |
| abstract_inverted_index.isolates | 24 |
| abstract_inverted_index.process. | 72 |
| abstract_inverted_index.protocol | 1, 42, 91, 115 |
| abstract_inverted_index.reagents | 101 |
| abstract_inverted_index.suitable | 18 |
| abstract_inverted_index.workflow | 125 |
| abstract_inverted_index.Detection | 6 |
| abstract_inverted_index.Recording | 135 |
| abstract_inverted_index.chemistry | 99 |
| abstract_inverted_index.sequences | 74 |
| abstract_inverted_index.Sequencing | 11 |
| abstract_inverted_index.poliovirus | 8, 50 |
| abstract_inverted_index.sequencer. | 112 |
| abstract_inverted_index.sequencing | 100 |
| abstract_inverted_index.simplifies | 67 |
| abstract_inverted_index.subsequent | 69 |
| abstract_inverted_index.preparation | 71 |
| abstract_inverted_index.transported | 34 |
| cited_by_percentile_year | |
| countries_distinct_count | 1 |
| institutions_distinct_count | 7 |
| citation_normalized_percentile.value | 0.07465832 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |