# Laboratory **URL:** https://community.artic.network/c/laboratory/6.md [Latest](https://community.artic.network/latest.md) · [Categories](https://community.artic.network/categories.md) --- ## [About the Laboratory category](https://community.artic.network/t/about-the-laboratory-category/13)
**Author:** [@nick](https://community.artic.network/u/nick)\ **Replies:** 0
--- ## [ARTIC Multiplex PCR (Full pathogens list)](https://community.artic.network/t/artic-multiplex-pcr-full-pathogens-list/494)
**Author:** [@Kess\_Rowe](https://community.artic.network/u/Kess_Rowe)\ **Replies:** 1\ **Last updated:** [23 August 2024 12:54 UTC](https://community.artic.network/t/artic-multiplex-pcr-full-pathogens-list/494 "2024-08-23T12:54:48Z")
Below is a living excel spreadsheet of pathogens that have been sequenced using Primal Scheme approach to produce tiled amplicons for multiplex PCR. The spreadsheet cites the first use of the technique for various major … --- ## [Scheme release: artic-sars-cov2/400/v5.4.2](https://community.artic.network/t/scheme-release-artic-sars-cov2-400-v5-4-2/546)
**Author:** [@chriken](https://community.artic.network/u/chriken)\ **Replies:** 0\ **Last updated:** [5 August 2024 17:24 UTC](https://community.artic.network/t/scheme-release-artic-sars-cov2-400-v5-4-2/546 "2024-08-05T17:24:15Z")
Summary Our collaborators at the British Columba Centre for Disease Control (BCCDC), have updated artic-sars-cov2/400/v5.3.2 scheme to handle mutations found in the currently dominate lineages (JN.1). Spike in primers … --- ## [Overview of the LoCost SARS-CoV-2 protocol](https://community.artic.network/t/overview-of-the-locost-sars-cov-2-protocol/542)
**Author:** [@Lauren](https://community.artic.network/u/Lauren)\ **Replies:** 0\ **Last updated:** [26 July 2024 14:49 UTC](https://community.artic.network/t/overview-of-the-locost-sars-cov-2-protocol/542 "2024-07-26T14:49:45Z")
LoCost overview The LoCost workflow provides laboratory and bioinformatics protocols for whole genome amplicon sequencing of SARS-CoV-2. It has been designed to be used with the Oxford Nanopore (ONT) MinION sequencer, d… --- ## [SARS-CoV-2 version 5.3.2 scheme release](https://community.artic.network/t/sars-cov-2-version-5-3-2-scheme-release/462)
**Author:** [@scalene](https://community.artic.network/u/scalene)\ **Replies:** 12\ **Last updated:** [18 June 2024 14:51 UTC](https://community.artic.network/t/sars-cov-2-version-5-3-2-scheme-release/462 "2024-06-18T14:51:42Z")
Introduction Deciding when to release a new primer scheme is always a difficult decision because we want continuity but don’t want genomes with dropouts caused by primer problems. ARTIC v4/4.1 has been the recommended s… --- ## [Marburg 2023 primer scheme release](https://community.artic.network/t/marburg-2023-primer-scheme-release/479)
**Author:** [@scalene](https://community.artic.network/u/scalene)\ **Replies:** 0\ **Last updated:** [16 February 2023 15:00 UTC](https://community.artic.network/t/marburg-2023-primer-scheme-release/479 "2023-02-16T15:00:30Z")
We have generated a Marburg virus scheme in response to recent reports of an outbreak in Equatorial Guinea. We attempted to make a pan-MARV scheme incorporating all the publicly available genomes but the ‘primer clouds’ … --- ## [Erroneous Mutations Associated with 64\_L-60\_R Primer-Dimer in ARTIC 4/4.1 ](https://community.artic.network/t/erroneous-mutations-associated-with-64-l-60-r-primer-dimer-in-artic-4-4-1/419)
**Author:** [@Sam-W](https://community.artic.network/u/Sam-W)\ **Replies:** 0\ **Last updated:** [31 March 2022 10:27 UTC](https://community.artic.network/t/erroneous-mutations-associated-with-64-l-60-r-primer-dimer-in-artic-4-4-1/419 "2022-03-31T10:27:55Z")
Erroneous Mutations Associated with 64\_L-60\_R Primer-Dimer in ARTIC 4/4.1 Report prepared by: Sam Wilkinson, Natalie Groves, Josh Quick, Nick Loman Recently 664 (correct as of 2022-03-29) SARS-CoV-2 sequences have been… --- ## [SARS-CoV-2 V4.1 update for Omicron variant](https://community.artic.network/t/sars-cov-2-v4-1-update-for-omicron-variant/342)
**Author:** [@scalene](https://community.artic.network/u/scalene)\ **Replies:** 0\ **Last updated:** [1 December 2021 15:17 UTC](https://community.artic.network/t/sars-cov-2-v4-1-update-for-omicron-variant/342 "2021-12-01T15:17:29Z")
Introduction Multiplex PCR relies on gene-specific primers to enrich for viral sequences, and this makes it useful for generating viral genomes sequencing from clinical samples with a complex background. This also, howe… --- ## [SARS-CoV-2 version 4 scheme release](https://community.artic.network/t/sars-cov-2-version-4-scheme-release/312)
**Author:** [@scalene](https://community.artic.network/u/scalene)\ **Replies:** 0\ **Last updated:** [24 June 2021 12:05 UTC](https://community.artic.network/t/sars-cov-2-version-4-scheme-release/312 "2021-06-24T12:05:04Z")
Motivation ARTIC V3 primers have been the workhorse of SARS-CoV-2 sequencing for 15 months and have under various guises been used in the production of a large proportion of the ~2M genomes that have been deposited in G… --- ## [Agilent gel images](https://community.artic.network/t/agilent-gel-images/203)
**Author:** [@spinlerj](https://community.artic.network/u/spinlerj)\ **Replies:** 0\ **Last updated:** [19 June 2020 12:24 UTC](https://community.artic.network/t/agilent-gel-images/203 "2020-06-19T12:24:50Z")
We use Agilent chips for QCing amplified products prior to sequencing. Does anyone have gel images from Agilent chips for the covid19 PCR tiling products they’d be willing to share? We’d like to get an idea how well our … --- ## [V3 primer availability](https://community.artic.network/t/v3-primer-availability/123)
**Author:** [@scalene](https://community.artic.network/u/scalene)\ **Replies:** 0\ **Last updated:** [13 April 2020 15:51 UTC](https://community.artic.network/t/v3-primer-availability/123 "2020-04-13T15:51:08Z")
\*\* ARTIC nCoV-2019 V3 primer pool availability \*\* In the last post I alluded to the fact that ARTIC have been working with IDT to manufacture ARTIC nCoV-2019 V3 primer pools as a pre-pooled, ready to use formulation. I… --- ## [Update link to protocols.io](https://community.artic.network/t/update-link-to-protocols-io/153)
**Author:** [@martinalexsmith](https://community.artic.network/u/martinalexsmith)\ **Replies:** 7\ **Last updated:** [14 May 2020 22:39 UTC](https://community.artic.network/t/update-link-to-protocols-io/153 "2020-05-14T22:39:03Z")
Hello folks, We just ran the ARTIC protocol on some samples, but noticed there is a V2 version of the protocol which isn’t obvious to find from the website. The V1 version yielded lots of double barcode events and a non… --- ## [Dropout of amplicon 64](https://community.artic.network/t/dropout-of-amplicon-64/167)
**Author:** [@Claire](https://community.artic.network/u/Claire)\ **Replies:** 2\ **Last updated:** [8 May 2020 02:14 UTC](https://community.artic.network/t/dropout-of-amplicon-64/167 "2020-05-08T02:14:49Z")
Anyone seeing dropout of amplicon 64? Have you been able to fix it? TIA --- ## [The ARTIC workflows with Illumina / short read sequencing](https://community.artic.network/t/the-artic-workflows-with-illumina-short-read-sequencing/58)
**Author:** [@adahl](https://community.artic.network/u/adahl)\ **Replies:** 12\ **Last updated:** [23 April 2020 11:28 UTC](https://community.artic.network/t/the-artic-workflows-with-illumina-short-read-sequencing/58 "2020-04-23T11:28:06Z")
Dear all, For Virus sequencing do you know of any activities to use your V3 priming set with Illumina? We started working on it and would be interest in exchanging ideas. Cheers and many thanks in advance!!! Andreas --- ## [PCR extension time](https://community.artic.network/t/pcr-extension-time/52)
**Author:** [@helena\_ss](https://community.artic.network/u/helena_ss)\ **Replies:** 4\ **Last updated:** [15 April 2020 06:33 UTC](https://community.artic.network/t/pcr-extension-time/52 "2020-04-15T06:33:42Z")
Is 5 min extension time really necessary for 400bp fragments? We’ve been trying to do the whole protocol in one day and it’s been stretching to 13 hours. If we can save time at any step, that would help! --- ## [nCoV-2019 Version 3 Amplicon Release](https://community.artic.network/t/ncov-2019-version-3-amplicon-release/19)
**Author:** [@nick](https://community.artic.network/u/nick)\ **Replies:** 8\ **Last updated:** [13 April 2020 15:00 UTC](https://community.artic.network/t/ncov-2019-version-3-amplicon-release/19 "2020-04-13T15:00:17Z")
nCoV-2019/nCoV-2019 Version 3 Amplicon Set PDF version of this announcement here: https://artic.network/resources/ncov/ncov-amplicon-v3.pdf The ARTIC project released a protocol for sequencing nCoV-2019 on January 22n… --- ## [Multiplexing samples](https://community.artic.network/t/multiplexing-samples/91)
**Author:** [@MJC](https://community.artic.network/u/MJC)\ **Replies:** 2\ **Last updated:** [5 April 2020 14:44 UTC](https://community.artic.network/t/multiplexing-samples/91 "2020-04-05T14:44:50Z")
Hi! May you, please, let me know how many samples you multiplex per run and how long does it take? I have read 7 samples in 7 hours but also 24 samples in 8 hours, so I am confused. Cheers. Maria --- ## [ONT: Enabling require barcodes both ends for real time basecalling](https://community.artic.network/t/ont-enabling-require-barcodes-both-ends-for-real-time-basecalling/70)
**Author:** [@matt.loose](https://community.artic.network/u/matt.loose)\ **Replies:** 0\ **Last updated:** [1 April 2020 08:33 UTC](https://community.artic.network/t/ont-enabling-require-barcodes-both-ends-for-real-time-basecalling/70 "2020-04-01T08:33:09Z")
Thanks to some guidance from ONT we have a method for enabling guppy to check for barcodes at both ends of reads with live basecalling. This method is particularly helpful on systems with local basecalling available via …