Ryan Teo
@teojcryan.bsky.social
Computational Biology PhD Student at the University of Birmingham. (Meta)genomic pathogen surveillance, infectious disease modelling, and BW disarmament. 🇬🇧/🇸🇬
Reposted by Ryan Teo
Starting this week, I set aside one hour each week to meet ECRs outside my group who want to discuss career development, mentorship, or any non-technical professional questions.
Here is a blog that explains my motivation for this and how to schedule a meeting:
merenlab.org/2025/11/16/E...
Here is a blog that explains my motivation for this and how to schedule a meeting:
merenlab.org/2025/11/16/E...
ECR connection: Meet Meren when you need to
A means for ECRs to get advice from a senior scientist outside of their support network
merenlab.org
November 16, 2025 at 4:56 PM
Starting this week, I set aside one hour each week to meet ECRs outside my group who want to discuss career development, mentorship, or any non-technical professional questions.
Here is a blog that explains my motivation for this and how to schedule a meeting:
merenlab.org/2025/11/16/E...
Here is a blog that explains my motivation for this and how to schedule a meeting:
merenlab.org/2025/11/16/E...
Reposted by Ryan Teo
Can you take a quarter cup of composite sewage, simply ask ‘what’s in there?’, and find out all of the pathogens circulating in that community?
That is the question we asked in our latest pre-print.
Turns out you can.
1/
www.medrxiv.org/content/10.1...
That is the question we asked in our latest pre-print.
Turns out you can.
1/
www.medrxiv.org/content/10.1...
Untargeted longitudinal ultra deep metagenomic sequencing of wastewater provides a comprehensive readout of expected and unexpected viral pathogens
Wastewater surveillance has become a powerful tool to monitor circulating viruses at a community level. Currently, most wastewater surveillance efforts use target-based approaches such as quantitative...
www.medrxiv.org
October 31, 2025 at 12:19 PM
Can you take a quarter cup of composite sewage, simply ask ‘what’s in there?’, and find out all of the pathogens circulating in that community?
That is the question we asked in our latest pre-print.
Turns out you can.
1/
www.medrxiv.org/content/10.1...
That is the question we asked in our latest pre-print.
Turns out you can.
1/
www.medrxiv.org/content/10.1...
Reposted by Ryan Teo
How to design new synthetic microbial communities? It's a huge question we're still deeply exploring 🦠
Check out this new preprint by @tcahitch.bsky.social & @tclavel.bsky.social! They developed an function-directed approach using metagenomic to build better SynComs.
www.biorxiv.org/content/10.1...
Check out this new preprint by @tcahitch.bsky.social & @tclavel.bsky.social! They developed an function-directed approach using metagenomic to build better SynComs.
www.biorxiv.org/content/10.1...
Function-Based Selection of Synthetic Communities Enables Mechanistic Microbiome Studies
Understanding the complex interactions between microbes and their environment requires robust model systems such as synthetic communities (SynComs). We developed a functionally directed approach to ge...
www.biorxiv.org
September 28, 2025 at 10:52 AM
How to design new synthetic microbial communities? It's a huge question we're still deeply exploring 🦠
Check out this new preprint by @tcahitch.bsky.social & @tclavel.bsky.social! They developed an function-directed approach using metagenomic to build better SynComs.
www.biorxiv.org/content/10.1...
Check out this new preprint by @tcahitch.bsky.social & @tclavel.bsky.social! They developed an function-directed approach using metagenomic to build better SynComs.
www.biorxiv.org/content/10.1...
I'll be in Liverpool this week for #ISMBECCB2025! It'll be my first time attending, especially excited for the CAMDA and MICROBIOME tracks 🧬💻
July 19, 2025 at 2:01 PM
I'll be in Liverpool this week for #ISMBECCB2025! It'll be my first time attending, especially excited for the CAMDA and MICROBIOME tracks 🧬💻
Reposted by Ryan Teo
What a couple of days.
The Bath CBR Cohort rides again!
Thanks to everyone who participated in various ways, and offered to help out next year
We had some very good discussions and met many new people
And the facilitators put together something which I think we can all be very happy with indeed
The Bath CBR Cohort rides again!
Thanks to everyone who participated in various ways, and offered to help out next year
We had some very good discussions and met many new people
And the facilitators put together something which I think we can all be very happy with indeed
July 11, 2025 at 9:54 AM
What a couple of days.
The Bath CBR Cohort rides again!
Thanks to everyone who participated in various ways, and offered to help out next year
We had some very good discussions and met many new people
And the facilitators put together something which I think we can all be very happy with indeed
The Bath CBR Cohort rides again!
Thanks to everyone who participated in various ways, and offered to help out next year
We had some very good discussions and met many new people
And the facilitators put together something which I think we can all be very happy with indeed
Reposted by Ryan Teo
Interested in pneumococci, genomics and metagenomics? Come and do a PhD with me, @alanmcn1.bsky.social and @meerac.bsky.social @ukhsa.bsky.social www.findaphd.com/phds/project...
Leveraging genomics for improved metagenomic surveillance of Streptococcus pneumoniae at University of Birmingham on FindAPhD.com
PhD Project - Leveraging genomics for improved metagenomic surveillance of Streptococcus pneumoniae at University of Birmingham, listed on FindAPhD.com
www.findaphd.com
May 29, 2025 at 1:23 PM
Interested in pneumococci, genomics and metagenomics? Come and do a PhD with me, @alanmcn1.bsky.social and @meerac.bsky.social @ukhsa.bsky.social www.findaphd.com/phds/project...
Reposted by Ryan Teo
PhD position (Birmingham, United Kingdom)
Doctoral Training Programme in Microbial Genomics for Health Protection
at @imibirmingham.bsky.social
More details: http://iddjobs.org/jobs/2317
Doctoral Training Programme in Microbial Genomics for Health Protection
at @imibirmingham.bsky.social
More details: http://iddjobs.org/jobs/2317
May 27, 2025 at 7:35 PM
PhD position (Birmingham, United Kingdom)
Doctoral Training Programme in Microbial Genomics for Health Protection
at @imibirmingham.bsky.social
More details: http://iddjobs.org/jobs/2317
Doctoral Training Programme in Microbial Genomics for Health Protection
at @imibirmingham.bsky.social
More details: http://iddjobs.org/jobs/2317
Reposted by Ryan Teo
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 8:34 AM
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...
Reposted by Ryan Teo
We have a funded PhD opportunity to start this year for an exciting collaborative project with UKHSA as part of the Health Protection Research Unit in Public Health Genomics www.findaphd.com/phds/project...
The question is "how do we use metagenomic data for the best clinical outcomes?"
The question is "how do we use metagenomic data for the best clinical outcomes?"
Integrating metagenomics into respiratory clinical healthcare pathways – forest, trees, needles and haystacks in metagenomic data. at University of Birmingham on FindAPhD.com
PhD Project - Integrating metagenomics into respiratory clinical healthcare pathways – forest, trees, needles and haystacks in metagenomic data. at University of Birmingham, listed on FindAPhD.c...
www.findaphd.com
May 21, 2025 at 8:57 AM
We have a funded PhD opportunity to start this year for an exciting collaborative project with UKHSA as part of the Health Protection Research Unit in Public Health Genomics www.findaphd.com/phds/project...
The question is "how do we use metagenomic data for the best clinical outcomes?"
The question is "how do we use metagenomic data for the best clinical outcomes?"
Reposted by Ryan Teo
Delighted to see this paper from danderson123.bsky.social 's PhD out. We have been building tools for AMR gene detection for over a decade now, but multicopy genes remain challenging. Dan shows that with a gene-space de Bruijn graph and long reads, you can do well
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
May 19, 2025 at 9:28 AM
Delighted to see this paper from danderson123.bsky.social 's PhD out. We have been building tools for AMR gene detection for over a decade now, but multicopy genes remain challenging. Dan shows that with a gene-space de Bruijn graph and long reads, you can do well
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Ryan Teo
NEW
Tracking emerging viruses - featuring colleagues at
@imibirmingham.bsky.social
www.birmingham.ac.uk/news/2025/tr...
Tracking emerging viruses - featuring colleagues at
@imibirmingham.bsky.social
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
April 24, 2025 at 9:54 AM
NEW
Tracking emerging viruses - featuring colleagues at
@imibirmingham.bsky.social
www.birmingham.ac.uk/news/2025/tr...
Tracking emerging viruses - featuring colleagues at
@imibirmingham.bsky.social
www.birmingham.ac.uk/news/2025/tr...
Accelerating the Use of Pathogen Genomics and Metagenomics in Public Health: Proceedings of a Workshop nap.nationalacademies.org/catalog/29103
Accelerating the Use of Pathogen Genomics and Metagenomics in Public Health: Proceedings of a Workshop
Read online, download a free PDF, or order a copy in print.
nap.nationalacademies.org
April 23, 2025 at 8:49 PM
Accelerating the Use of Pathogen Genomics and Metagenomics in Public Health: Proceedings of a Workshop nap.nationalacademies.org/catalog/29103
Reposted by Ryan Teo
"Importantly, the metagenomic tests provide results within 6–8 h"
That's quick!
#metagenomics #IDSky #ClinMicro #medsky @lancetmicrobe.bsky.social
www.thelancet.com/journals/lan...
That's quick!
#metagenomics #IDSky #ClinMicro #medsky @lancetmicrobe.bsky.social
www.thelancet.com/journals/lan...
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 14, 2025 at 7:32 AM
"Importantly, the metagenomic tests provide results within 6–8 h"
That's quick!
#metagenomics #IDSky #ClinMicro #medsky @lancetmicrobe.bsky.social
www.thelancet.com/journals/lan...
That's quick!
#metagenomics #IDSky #ClinMicro #medsky @lancetmicrobe.bsky.social
www.thelancet.com/journals/lan...
Reposted by Ryan Teo
Thrilled to share that I’ve joined the Advanced Research + Invention Agency (ARIA, @aria-research.bsky.social) as one of its second cohort of Programme Directors.
Introducing our second cohort of Programme Directors – a group of world-class scientists, engineers and entrepreneurs, with proven track records for building ventures, communities and technologies of societal and economic significance. 🚀
link.aria.org.uk/programme-di... (1/3)
link.aria.org.uk/programme-di... (1/3)
Programme Directors
Learn more about our PDs – the exceptional scientists and engineers exploring uncharted territory.
link.aria.org.uk
April 7, 2025 at 8:31 AM
Thrilled to share that I’ve joined the Advanced Research + Invention Agency (ARIA, @aria-research.bsky.social) as one of its second cohort of Programme Directors.
Reposted by Ryan Teo
New paper, discussing open problems in bacterial phenotype prediction with ML: arxiv.org/abs/2502.07749
Whole-Genome Phenotype Prediction with Machine Learning: Open Problems in Bacterial Genomics
How can we identify causal genetic mechanisms that govern bacterial traits? Initial efforts entrusting machine learning models to handle the task of predicting phenotype from genotype return high accu...
arxiv.org
February 18, 2025 at 1:35 PM
New paper, discussing open problems in bacterial phenotype prediction with ML: arxiv.org/abs/2502.07749
Reposted by Ryan Teo
After 5️⃣ months of learning online, the first cohort of the Biological Weapons Convention Advanced Education Course are joining us in Geneva! 🇨🇭
Participants will run tabletop exercises, simulate a scientific & tech review mechanism, and engage with experts on #1972BWC issues 👩🏾🔬🗨️
Participants will run tabletop exercises, simulate a scientific & tech review mechanism, and engage with experts on #1972BWC issues 👩🏾🔬🗨️
February 4, 2025 at 12:32 PM
After 5️⃣ months of learning online, the first cohort of the Biological Weapons Convention Advanced Education Course are joining us in Geneva! 🇨🇭
Participants will run tabletop exercises, simulate a scientific & tech review mechanism, and engage with experts on #1972BWC issues 👩🏾🔬🗨️
Participants will run tabletop exercises, simulate a scientific & tech review mechanism, and engage with experts on #1972BWC issues 👩🏾🔬🗨️
Reposted by Ryan Teo
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 Ryan Teo
New @nti.org essay collection explores potential solutions to disincentivize states from developing or using bioweapons, bridging theory and practical policy-relevant approaches to reduce biological threats. www.nti.org/bioweapons
Disincentivizing Bioweapons: Theory and Policy Approaches
This essay collection is designed to encourage the exploration and identification of potential solutions to disincentivize states from developing or using biological weapons. The goal of this collecti...
www.nti.org
December 11, 2024 at 4:57 PM
New @nti.org essay collection explores potential solutions to disincentivize states from developing or using bioweapons, bridging theory and practical policy-relevant approaches to reduce biological threats. www.nti.org/bioweapons
Reposted by Ryan Teo
We have a paid internship opportunity in our group at EMBL-EBI (Cambridge) starting in February 2025, working on pneumococcal serotyping using deep learning. (1/3)
November 4, 2024 at 11:51 AM
We have a paid internship opportunity in our group at EMBL-EBI (Cambridge) starting in February 2025, working on pneumococcal serotyping using deep learning. (1/3)
Thank you to the #genomeinformatics24 organisers for the opportunity to attend and to present my poster on De Bruijn graph representations of metagenomes (doi.org/10.6084/m9.f...). Had great chats about the future of metagenome assembly, DBgs, and k-mer/unitig indices
Exploring de Bruijn graphs as a Framework for Metagenomic Data Representation
This poster was presented at Genome Informatics 2024.
doi.org
November 16, 2024 at 12:00 PM
Thank you to the #genomeinformatics24 organisers for the opportunity to attend and to present my poster on De Bruijn graph representations of metagenomes (doi.org/10.6084/m9.f...). Had great chats about the future of metagenome assembly, DBgs, and k-mer/unitig indices
Reposted by Ryan Teo
Delighted that Birmingham has been awarded HPRU status in Public Health Genomics! Am looking forward to working with stellar team from UKHSA and Birmingham on themes inc. env surveillance, metagenomics, novel genomics methods & analysis/data infrastructure www.birmingham.ac.uk/news/2024/pr...
Protecting the public from health threats - University of Birmingham
New Health Protection Research Units will help responses to future incidents including terrorism and pandemics
www.birmingham.ac.uk
October 25, 2024 at 11:24 AM
Delighted that Birmingham has been awarded HPRU status in Public Health Genomics! Am looking forward to working with stellar team from UKHSA and Birmingham on themes inc. env surveillance, metagenomics, novel genomics methods & analysis/data infrastructure www.birmingham.ac.uk/news/2024/pr...
Reposted by Ryan Teo
It's happening again! The next Analysing Microbial Genomic Data course (#AMGD25) in bioinformatically brilliant Birmingham is available - 5 days, hands-on, 17th March 25, beginners welcome www.birmingham.ac.uk/postgraduate...
October 8, 2024 at 9:54 AM
It's happening again! The next Analysing Microbial Genomic Data course (#AMGD25) in bioinformatically brilliant Birmingham is available - 5 days, hands-on, 17th March 25, beginners welcome www.birmingham.ac.uk/postgraduate...