articnetwork.bsky.social
ARTIC Network
@articnetwork.bsky.social
270 followers 25 following 20 posts
Putting genomic surveillance at the heart of outbreak response. Wellcome Trust-funded Collaborative Award.
Posts Media Videos Starter Packs
Reposted by ARTIC Network
scalene.bsky.social
Josh Quick @scalene.bsky.social · Jun 19
Click the link for open-source recipes for end-preparation, barcode and adapter ligation. 60% cost saving over commercial kits for the ARTIC protocol.
annakovalenko.bsky.social
Anna (Ganna) Kovalenko @annakovalenko.bsky.social · Jun 15
the link to the preprint 🔗 www.biorxiv.org/content/10.1...
Reducing Supply Chain Dependencies for Viral Genomic Surveillance: Get by with a Little HELP from Commercial Enzymes already in your Lab Freezer
The COVID-19 pandemic exposed vulnerabilities in global laboratory supply chains, disrupting genomic surveillance efforts essential to epidemic response. To address this challenge, we developed ARTIC ...
www.biorxiv.org
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Reposted by ARTIC Network
kgandersen.bsky.social
Kristian G. Andersen @kgandersen.bsky.social · May 27
Amazing work from our colleagues in Sierra Leone, Nigeria, and elsewhere, making the first sequences available from the ongoing Mpox epidemic in Sierra Leone.

More to come - for now, head over to @pathoplexus.org:

pathoplexus.org/seqsets/PP_S...
Pathoplexus | SeqSets
Pathoplexus is a new, open-source database dedicated to the efficient sharing of human viral pathogen genomic data, fostering global collaboration and public health response.
pathoplexus.org
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Reposted by ARTIC Network
theo.io
Theo Sanderson @theo.io · May 22
Super exciting that we're now up to eight viruses supported on Pathoplexus - with lots of other exciting features in the pipeline too!
pathoplexus.org
Pathoplexus @pathoplexus.org · May 22
📢Today Pathoplexus announces the inclusion of 2 new viral pathogens: RSV (A & B) and HMPV.

These respiratory viruses cause a serious health burden, particularly in infants & the vulnerable, & Pathoplexus aims to support sequence sharing to improve understanding & response.

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Screenshot of the homepage of Pathoplexus, showing tiles to navigate to the supported pathogens CCHF, Ebola Sudan, Ebola Zaire, HMPV, Mpox, RSV-A, RSV-B, and West Nile virus.
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Reposted by ARTIC Network
jessicamablair.bsky.social
Jessica Blair @jessicamablair.bsky.social · May 23
**NEW Doctoral Training Programme just launched!!** This exciting programme on Microbial Genomics for Health Protection is joint between @imibirmingham.bsky.social and UKHSA @ukhsa.bsky.social. 9 brilliant projects available!!
imibirmingham.bsky.social
Institute of Microbiology and Infection @imibirmingham.bsky.social · May 23
An exciting new Doctoral Training Programme in Microbial Genomics for Health Protection, in collaboration with the UK Health Security Agency @ukhsa.bsky.social, has just launched, funded by @nihr.bsky.social there are 9 PhD projects available (UK students only) www.birmingham.ac.uk/research/cen...
PhD Microbial Genomics for Health Protection, Biosciences - University of Birmingham
PhD in Microbial Genomics, exciting new Doctoral Training Programme in Microbial Genomics for Health Protection in collaboration with the UK Health Security Agency (UKHSA) launches
www.birmingham.ac.uk
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Reposted by ARTIC Network
pathoplexus.org
Pathoplexus @pathoplexus.org · May 22
📢Today Pathoplexus announces the inclusion of 2 new viral pathogens: RSV (A & B) and HMPV.

These respiratory viruses cause a serious health burden, particularly in infants & the vulnerable, & Pathoplexus aims to support sequence sharing to improve understanding & response.

1/4
Screenshot of the homepage of Pathoplexus, showing tiles to navigate to the supported pathogens CCHF, Ebola Sudan, Ebola Zaire, HMPV, Mpox, RSV-A, RSV-B, and West Nile virus.
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articnetwork.bsky.social
ARTIC Network @articnetwork.bsky.social · May 22
PhD opportunity!

www.findaphd.com/phds/project...
Metagenomic Methods Development for Public Health Genomics and Pandemic Preparedness at University of Birmingham on FindAPhD.com
PhD Project - Metagenomic Methods Development for Public Health Genomics and Pandemic Preparedness at University of Birmingham, listed on FindAPhD.com
www.findaphd.com
articnetwork.bsky.social
ARTIC Network @articnetwork.bsky.social · May 22
PhD opportunity!

www.findaphd.com/phds/project...
The Last of Us: Developing a Genomic Epidemiology Toolkit for Fungal Outbreaks at University of Birmingham on FindAPhD.com
PhD Project - The Last of Us: Developing a Genomic Epidemiology Toolkit for Fungal Outbreaks at University of Birmingham, listed on FindAPhD.com
www.findaphd.com
articnetwork.bsky.social
ARTIC Network @articnetwork.bsky.social · May 22
ARTIC 2 is here!
pathogenomenick.bsky.social
Nick Loman @pathogenomenick.bsky.social · May 22
Absolutely thrilled to announce the launch of ARTIC2 - a £5.5M 5 year project funded by @wellcometrust.bsky.social to build on the ARTIC approach of low-cost, globally accessible genome sequencing for surveillance of outbreaks, epidemics and endemic diseases: www.birmingham.ac.uk/news/2025/am...
Ambitious project to develop low-cost genome sequencing for pathogens known and unknown - University of Birmingham
Project will build on research that helped diagnostic labs to adopt sequencing capacity for COVID-19 and permit characterisation of future infectious threats
www.birmingham.ac.uk
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articnetwork.bsky.social
ARTIC Network @articnetwork.bsky.social · May 19
www.birmingham.ac.uk/news/2025/tr...
Tracking emerging viruses - University of Birmingham
Our researchers are developing fast and portable virus sequencing techniques to track viruses in areas with limited medical resources.
www.birmingham.ac.uk
articnetwork.bsky.social
ARTIC Network @articnetwork.bsky.social · May 2
www.birmingham.ac.uk/news/2025/tr...
Tracking emerging viruses - University of Birmingham
Our researchers are developing fast and portable virus sequencing techniques to track viruses in areas with limited medical resources.
www.birmingham.ac.uk
Reposted by ARTIC Network
pathogenomenick.bsky.social
Nick Loman @pathogenomenick.bsky.social · Apr 24
Thanks to @lancetmicrobe.bsky.social for featuring our mSCAPE metagenomics surveillance collaboration and also thanks for the considered comments from Mario Falchi and Judy Breuer: www.thelancet.com/journals/lan... - keep an eye out on mSCAPE.climb.ac.uk for further details and resources
UK launch metagenomic pathogen surveillance programme
On Jan 30, 2025, the UK Health Security Agency (UKHSA) announced the launch of the metagenomics Surveillance Collaboration and Analysis Programme (mSCAPE)—the world’s first biosecurity surveillance sy...
www.thelancet.com
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Reposted by ARTIC Network
pathoplexus.org
Pathoplexus @pathoplexus.org · Apr 16
🗓️ Pathoplexus has now been around for 7 months!

And both we and our users have been busy - so we wanted to share some updates & highlights!

📰 You can see our full News Item here: pathoplexus.org/news/2025-04-16-spring-update

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Pathoplexus | Pathoplexus Spring Update
Pathoplexus is a new, open-source database dedicated to the efficient sharing of human viral pathogen genomic data, fostering global collaboration and public health response.
pathoplexus.org
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Reposted by ARTIC Network
scalene.bsky.social
Josh Quick @scalene.bsky.social · Apr 8
Job opportunity working with myself and @pmoyniha.bsky.social on an exciting Gates funded project developing TB lysis enzymes for rapid diagnostics. edzz.fa.em3.oraclecloud.com/hcmUI/Candid...
Research Associate (Genomics) - School of Biosciences - 105316 - Grade 6
The successful candidate will play a crucial role in developing an innovative TB diagnostic approach, collaborating across a multidisciplinary team to advance our novel enzymatic lysis technology. Key...
edzz.fa.em3.oraclecloud.com
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articnetwork.bsky.social
ARTIC Network @articnetwork.bsky.social · Mar 31
edzz.fa.em3.oraclecloud.com/hcmUI/Candid...
Research Fellow - Department of Microbes, Infection and Microbiomes - 105518 - Grade 7
You will primarily be working in Theme 2: Applying Novel Omics Methods to Public Health Microbiology, which aims to demonstrate potential utility of new sequencing technologies such as single cell gen...
edzz.fa.em3.oraclecloud.com
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articnetwork.bsky.social
ARTIC Network @articnetwork.bsky.social · Mar 24
Earlier this month ARTIC, together with Asia PGI, were hosted by the Ministry of Public Health in Bangkok, to conduct a regional training workshop of #MPOX #genomicsurveillance, organised by the South-East Asian WHO office, with attendees from 8 countries.
Reposted by ARTIC Network
mrcunitgambia.bsky.social
MRC Unit The Gambia at LSHTM @mrcunitgambia.bsky.social · Feb 26
In collaboration with CLIMB BIG DATA & @articnetwork.bsky.social, we are hosting the 2-day 'Cloud Computing in Africa conference under the theme: Building Sustainable Digital Infrastructure for Pathogen Genomics,' to better understand and improve population health and health care systems in #Africa.
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Reposted by ARTIC Network
pathogenomenick.bsky.social
Nick Loman @pathogenomenick.bsky.social · Jan 30
Our mSCAPE project has been formally announced to the world by @smhopkins.bsky.social at #FOG2025 today: www.gov.uk/government/n... - a really exciting academic-public health collaboration to build a surveillance platform leveraging NHS metagenomic diagnostic data. @meerac.bsky.social
UKHSA launches new metagenomic surveillance for health security
The UK launches mSCAPE, a world-first metagenomics initiative by UKHSA to enhance health security through rapid pathogen detection and surveillance.
www.gov.uk
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Reposted by ARTIC Network
silargi.bsky.social
silargi.bsky.social @silargi.bsky.social · Jan 17
Does your team deposit and access pathogen genomic data via data-sharing platforms for public health use? Participate in WHO's online consultation on the critical features of pathogen genomic data-sharing platforms to meet public health needs.

All info here: www.who.int/news-room/ar...
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Reposted by ARTIC Network
eventswcs.bsky.social
Wellcome Connecting Science Learning and Training @eventswcs.bsky.social · Jan 28
Bursary support is available to attend Applied Bioinformatics and Public Health Microbiology 2025!💰 #ABPHM25

Join us to explore the impact of data-driven #genomics on global #PublicHealth 🧬

Apply by 25 February to be considered for up to 50% off the fee. #Bursaries

📎Find out more: bit.ly/4fc0T28
Applied Bioinformatics and Public Health Microbiology (hybrid conference) Dates: 21-23 May 2025 Location: Hinxton Hall Conference Centre, Wellcome Genome Campus, UK and online Bursary deadline: 25 February 2025 Abstract deadline: 25 March 2025 In-person registration deadline: 29 April 2025 Virtual registration deadline: 13 May 2025
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biowilko.bsky.social
Sam Wilkinson @biowilko.bsky.social · Jan 13
I've written a quick post about the recent changes to the @articnetwork.bsky.social fieldbioinformatics pipeline

virological.org/t/fieldbioin...
Fieldbioinformatics Updates
> Fieldbioinformatics updated to 1.6.0 Fieldbioinformatics has been the first line recommendation by the artic network for generation of consensus sequences from Nanopore viral amplicon sequencing d...
virological.org
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Reposted by ARTIC Network
scalene.bsky.social
Josh Quick @scalene.bsky.social · Dec 9
Thank you for doing this it's going to be incredibly useful!
willaanderson.bsky.social
Will Anderson @willaanderson.bsky.social · Dec 8
Hey #HiSciSky 👋.

I'm a post-doc researcher with a background in scientific device dev.

I have just released an open-source STEM-Education project for a $40, 3D-printed, DNA fluorometer with ng/uL levels of sensitivity. Follow for updates!

GitHub Repo: github.com/traulab/DIYN...

#DIYNAFLUOR #STEM
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Reposted by ARTIC Network
arambaut.bsky.social
Andrew Rambaut @arambaut.bsky.social · Dec 10
The official announcement:

bsky.app/profile/path...
pathoplexus.org
Pathoplexus @pathoplexus.org · Dec 9
Today Pathoplexus announces the inclusion of a new viral pathogen: mpox (previously known as monkeypox).

Within the context of the current mpox outbreaks and ongoing health concerns, Pathoplexus aims to support sequence sharing to improve both understanding and response.

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Reposted by ARTIC Network
chris.primalscheme.com
Chris Kent @chris.primalscheme.com · Dec 9
primalscheme3 is now live at primalscheme.com!

Key features
- Handle up to 20% target diversity
- Create panels for multiple targets
- Improved multiplexing, allowing 10x more primer per reaction

Preprint to follow
PrimalScheme3: primer panels for multiplex PCR
primalscheme is a tool for designing primer panels for multiplex PCR. It uses a greedy algorithm to find primers for tiling amplicon generation for multiple reference genomes.
primalscheme.com
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Reposted by ARTIC Network
onisillos.bsky.social
🎃nisillos @onisillos.bsky.social · Nov 26
“Pandemics and epidemics continue to be a global threat, further amplified by climate change. There is urgent need for equitable access to these tools and capabilities to protect lives in vulnerable communities.”

www.who.int/news/item/26...
International Pathogen Surveillance Network announces first recipients of grants to better understand disease threats
The World Health Organization (WHO) and partners announced ten projects that will receive almost US$ 2 million in grants to improve capacities in pathogen genomic surveillance.
www.who.int
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Reposted by ARTIC Network
marionkoopmans.bsky.social
Marion Koopmans @marionkoopmans.bsky.social · Nov 21
Fabulous work with colleagues in Burundi, who took up Mpox sequencing to understand the situation AND are willing to share pre-publication, shows the expanding tree, and evidence for several introductions not taking off. In progress virological.org/t/preliminar...
Preliminary analysis of 98 genomic sequences of MPXV clade Ib cases from Burundi, July to September 2024
Preliminary analysis of 98 genomic sequences of MPXV clade Ib cases from Burundi, July to September 2024 Introduction A large mpox clade Ib virus outbreak started in the province of South Kivu in th...
virological.org
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