ARTIC Network
@articnetwork.bsky.social
Putting genomic surveillance at the heart of outbreak response. Wellcome Trust-funded Collaborative Award.
Reposted by ARTIC Network
Click the link for open-source recipes for end-preparation, barcode and adapter ligation. 60% cost saving over commercial kits for the ARTIC protocol.
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
June 19, 2025 at 10:02 AM
Click the link for open-source recipes for end-preparation, barcode and adapter ligation. 60% cost saving over commercial kits for the ARTIC protocol.
Reposted by ARTIC Network
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...
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
May 27, 2025 at 8:28 PM
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...
More to come - for now, head over to @pathoplexus.org:
pathoplexus.org/seqsets/PP_S...
Reposted by ARTIC Network
Super exciting that we're now up to eight viruses supported on Pathoplexus - with lots of other exciting features in the pipeline too!
📢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
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
May 22, 2025 at 4:23 PM
Super exciting that we're now up to eight viruses supported on Pathoplexus - with lots of other exciting features in the pipeline too!
Reposted by ARTIC Network
**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!!
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
May 23, 2025 at 10:36 AM
**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!!
Reposted by ARTIC Network
📢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
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
May 22, 2025 at 4:06 PM
📢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
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
ARTIC 2 is here!
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
May 22, 2025 at 5:52 PM
ARTIC 2 is here!
Reposted by ARTIC Network
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
April 24, 2025 at 1:55 PM
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
Reposted by ARTIC Network
🗓️ 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
1/9
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
1/9
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
April 16, 2025 at 3:47 PM
🗓️ 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
1/9
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
1/9
Reposted by ARTIC Network
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
April 8, 2025 at 10:42 AM
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...
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.
March 24, 2025 at 1:02 PM
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
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.
February 26, 2025 at 1:57 PM
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.
Reposted by ARTIC Network
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
January 30, 2025 at 4:54 PM
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
Reposted by ARTIC Network
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...
All info here: www.who.int/news-room/ar...
January 17, 2025 at 9:46 AM
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...
All info here: www.who.int/news-room/ar...
Reposted by ARTIC Network
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
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
January 28, 2025 at 8:05 AM
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
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
Reposted by ARTIC Network
I've written a quick post about the recent changes to the @articnetwork.bsky.social fieldbioinformatics pipeline
virological.org/t/fieldbioin...
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
January 13, 2025 at 10:49 AM
I've written a quick post about the recent changes to the @articnetwork.bsky.social fieldbioinformatics pipeline
virological.org/t/fieldbioin...
virological.org/t/fieldbioin...
Reposted by ARTIC Network
Thank you for doing this it's going to be incredibly useful!
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
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
December 9, 2024 at 4:39 PM
Thank you for doing this it's going to be incredibly useful!
Reposted by ARTIC Network
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.
1/7
Within the context of the current mpox outbreaks and ongoing health concerns, Pathoplexus aims to support sequence sharing to improve both understanding and response.
1/7
December 10, 2024 at 12:09 AM
Reposted by ARTIC Network
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
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
December 9, 2024 at 2:25 PM
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
Key features
- Handle up to 20% target diversity
- Create panels for multiple targets
- Improved multiplexing, allowing 10x more primer per reaction
Preprint to follow
Reposted by ARTIC Network
“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...
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
November 26, 2024 at 12:47 PM
“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...
www.who.int/news/item/26...
Reposted by ARTIC Network
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
November 21, 2024 at 7:52 AM
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...