Leonie Lorenz
@leonielorenz.bsky.social
PhD student at EMBL-EBI & University of Cambridge | enthusiast for mathematical modelling and genomics in pathogen and cancer evolution
Reposted by Leonie Lorenz
Happy to share our new AMR resource which has phenotypic AMR (usually MIC data) collected from publications and databases. This is paired with assemblies and annotations
We're excited for users who might train new models, find phenotype/genotype mismatches, or any other use
We're excited for users who might train new models, find phenotype/genotype mismatches, or any other use
Antimicrobial resistance (AMR) is a growing health threat, making infections harder to treat and complicating routine medical care.
EMBL-EBI’s new AMR portal brings together laboratory resistance data and bacterial genomes in one open platform.
#WAAW2025 #ActOnAMR
www.ebi.ac.uk/about/news/t...
🧬💻
EMBL-EBI’s new AMR portal brings together laboratory resistance data and bacterial genomes in one open platform.
#WAAW2025 #ActOnAMR
www.ebi.ac.uk/about/news/t...
🧬💻
A new gateway to global antimicrobial resistance data
New online portal connects bacterial genomes with experimental resistance data to support antimicrobial resistance research.
www.ebi.ac.uk
November 19, 2025 at 12:27 PM
Happy to share our new AMR resource which has phenotypic AMR (usually MIC data) collected from publications and databases. This is paired with assemblies and annotations
We're excited for users who might train new models, find phenotype/genotype mismatches, or any other use
We're excited for users who might train new models, find phenotype/genotype mismatches, or any other use
Reposted by Leonie Lorenz
Do you like theoretical biology, mathematical&conceptual modelling and want to apply yourself to cutting-edge research at all levels of biology, from molecules to ecosystems?
Come to EMBL! Scope includes physics-based models, emergence, statistics, ML/AI
embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
Come to EMBL! Scope includes physics-based models, emergence, statistics, ML/AI
embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
September 29, 2025 at 7:03 AM
Do you like theoretical biology, mathematical&conceptual modelling and want to apply yourself to cutting-edge research at all levels of biology, from molecules to ecosystems?
Come to EMBL! Scope includes physics-based models, emergence, statistics, ML/AI
embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
Come to EMBL! Scope includes physics-based models, emergence, statistics, ML/AI
embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
Reposted by Leonie Lorenz
Thank you to everyone who joined us this week for the @embo.org Practical Course 'Methods for infectious disease modelling using genomics'.
Join us for 2026's EMBO Practical Course. Sign up for 'Causality in biomedicine' alerts and hear as this new course develops: www.ebi.ac.uk/training/eve...
🧬🧫
Join us for 2026's EMBO Practical Course. Sign up for 'Causality in biomedicine' alerts and hear as this new course develops: www.ebi.ac.uk/training/eve...
🧬🧫
September 19, 2025 at 8:33 AM
Thank you to everyone who joined us this week for the @embo.org Practical Course 'Methods for infectious disease modelling using genomics'.
Join us for 2026's EMBO Practical Course. Sign up for 'Causality in biomedicine' alerts and hear as this new course develops: www.ebi.ac.uk/training/eve...
🧬🧫
Join us for 2026's EMBO Practical Course. Sign up for 'Causality in biomedicine' alerts and hear as this new course develops: www.ebi.ac.uk/training/eve...
🧬🧫
Open PhD position in our lab for starting roughly in September 2026. Cannot recommend this lab enough!!! 🦠🖥️
#MathematicalModelling
#BacterialGenomics
#Bioinformatics
#MathematicalModelling
#BacterialGenomics
#Bioinformatics
The EMBL PhD programme is open until 13th October (entry ~Sep 2026):
www.embl.org/about/info/e...
We have three positions in microbial genomics at EMBL-EBI, including one in my group. Please do apply, or if you know anyone that would be interested pass on to them
www.embl.org/about/info/e...
We have three positions in microbial genomics at EMBL-EBI, including one in my group. Please do apply, or if you know anyone that would be interested pass on to them
EMBL International PhD Programme – Unique in the world and waiting for you!
www.embl.org
September 19, 2025 at 1:37 PM
Open PhD position in our lab for starting roughly in September 2026. Cannot recommend this lab enough!!! 🦠🖥️
#MathematicalModelling
#BacterialGenomics
#Bioinformatics
#MathematicalModelling
#BacterialGenomics
#Bioinformatics
Reposted by Leonie Lorenz
Mathematical models in biology are powerful, but often hard to run, visualise, or reuse without specialist skills.
Menelmacar is a new platform that makes biological models interactive and easy to explore directly in the browser: biomodels.bacpop.org
🧬💻
Menelmacar is a new platform that makes biological models interactive and easy to explore directly in the browser: biomodels.bacpop.org
🧬💻
September 8, 2025 at 10:25 AM
Mathematical models in biology are powerful, but often hard to run, visualise, or reuse without specialist skills.
Menelmacar is a new platform that makes biological models interactive and easy to explore directly in the browser: biomodels.bacpop.org
🧬💻
Menelmacar is a new platform that makes biological models interactive and easy to explore directly in the browser: biomodels.bacpop.org
🧬💻
Very happy to announce that my first first-author paper just got published in Bioinformatics! We developed the web-application Menelmacar that displays differential equation models from @biomodels.bsky.social in the browser - it's beautiful and interactive!
doi.org/10.1093/bioi...
doi.org/10.1093/bioi...
SBMLtoOdin and menelmacar: Interactive visualisation of systems biology models for expert and non-expert audiences
AbstractSummary. Computational models in biology can increase our understanding of biological systems, be used to answer research questions, and make predi
doi.org
September 3, 2025 at 9:54 AM
Very happy to announce that my first first-author paper just got published in Bioinformatics! We developed the web-application Menelmacar that displays differential equation models from @biomodels.bsky.social in the browser - it's beautiful and interactive!
doi.org/10.1093/bioi...
doi.org/10.1093/bioi...
Reposted by Leonie Lorenz
We're so proud of this new on-demand tutorial from Eva-Maria Geissen, @leonielorenz.bsky.social, our recent intern Harry Roussos, third year PhD student at @pdncambridge.bsky.social.
Read Harry's blog all about the tutorial creation: www.embl.org/about/info/c...
Image credit: Juanita Riveros
🧬📊🖥️🎓
Read Harry's blog all about the tutorial creation: www.embl.org/about/info/c...
Image credit: Juanita Riveros
🧬📊🖥️🎓
August 19, 2025 at 11:46 AM
We're so proud of this new on-demand tutorial from Eva-Maria Geissen, @leonielorenz.bsky.social, our recent intern Harry Roussos, third year PhD student at @pdncambridge.bsky.social.
Read Harry's blog all about the tutorial creation: www.embl.org/about/info/c...
Image credit: Juanita Riveros
🧬📊🖥️🎓
Read Harry's blog all about the tutorial creation: www.embl.org/about/info/c...
Image credit: Juanita Riveros
🧬📊🖥️🎓
Reposted by Leonie Lorenz
My PhD student @leonielorenz.bsky.social (with Eva Geissen) has made this nice (free) online course to introduce mathematical modelling for biology:
www.ebi.ac.uk/training/onl...
Including both molecular and epidemiological examples
www.ebi.ac.uk/training/onl...
Including both molecular and epidemiological examples
Mathematical modelling for biologists - Modelling concepts in biological research
Mathematical modelling for biologists - Modelling concepts in biological research
www.ebi.ac.uk
August 15, 2025 at 10:39 AM
My PhD student @leonielorenz.bsky.social (with Eva Geissen) has made this nice (free) online course to introduce mathematical modelling for biology:
www.ebi.ac.uk/training/onl...
Including both molecular and epidemiological examples
www.ebi.ac.uk/training/onl...
Including both molecular and epidemiological examples
Reposted by Leonie Lorenz
Powerful stuff from @juliosaezrod.bsky.social who found himself on the other end of the process - as a patient not a computational biology researcher - giving him insight into both research and patient perspectives. Huge credit to Julio for talking about his experiences here
June 20, 2025 at 8:06 AM
Powerful stuff from @juliosaezrod.bsky.social who found himself on the other end of the process - as a patient not a computational biology researcher - giving him insight into both research and patient perspectives. Huge credit to Julio for talking about his experiences here
Reposted by Leonie Lorenz
Amira: gene-space de Bruijn graphs to improve the detection of AMR genes from bacterial long reads https://www.biorxiv.org/content/10.1101/2025.05.16.654303v1
May 19, 2025 at 4:47 AM
Amira: gene-space de Bruijn graphs to improve the detection of AMR genes from bacterial long reads https://www.biorxiv.org/content/10.1101/2025.05.16.654303v1
Reposted by Leonie Lorenz
You have until 25 May to apply for this @embo.org Practical Course introducing concepts, methods and tools for carrying out infectious disease modelling using genomics www.ebi.ac.uk/training/eve...
There is some financial assistance provided by EMBO - please see the course website for info
🧪🧬🖥️🦠🧫
There is some financial assistance provided by EMBO - please see the course website for info
🧪🧬🖥️🦠🧫
May 8, 2025 at 8:34 AM
You have until 25 May to apply for this @embo.org Practical Course introducing concepts, methods and tools for carrying out infectious disease modelling using genomics www.ebi.ac.uk/training/eve...
There is some financial assistance provided by EMBO - please see the course website for info
🧪🧬🖥️🦠🧫
There is some financial assistance provided by EMBO - please see the course website for info
🧪🧬🖥️🦠🧫
Very happy and proud to announce that the first preprint of my PhD is out: arxiv.org/abs/2504.20710
We developed an R package to translate mathematical models in SBML format into executable odin models and visualise models from @biomodels.bsky.social on our website Menelmacar biomodels.bacpop.org
We developed an R package to translate mathematical models in SBML format into executable odin models and visualise models from @biomodels.bsky.social on our website Menelmacar biomodels.bacpop.org
SBMLtoOdin and Menelmacar: Interactive visualisation of systems biology models for expert and non-expert audiences
Motivation: Computational models in biology can increase our understanding of biological systems, be used to answer research questions, and make predictions. Accessibility and reusability of computati...
arxiv.org
May 7, 2025 at 9:27 AM
Very happy and proud to announce that the first preprint of my PhD is out: arxiv.org/abs/2504.20710
We developed an R package to translate mathematical models in SBML format into executable odin models and visualise models from @biomodels.bsky.social on our website Menelmacar biomodels.bacpop.org
We developed an R package to translate mathematical models in SBML format into executable odin models and visualise models from @biomodels.bsky.social on our website Menelmacar biomodels.bacpop.org
Reposted by Leonie Lorenz
"If you find something that you love, just follow it. Keep your eyes open, connect to others, and trust yourself," says Jana Wolf, head of the "Mathematical Modelling of Cellular Processes" lab at #mdcBerlin.
👇 Watch the video & share to inspire others! 👇 #mdcDiversity #WomenInSTEM #WomenInScience
👇 Watch the video & share to inspire others! 👇 #mdcDiversity #WomenInSTEM #WomenInScience
Celebrating our #WomenInSTEM: Jana Wolf
YouTube video by Max Delbrück Center
youtu.be
March 7, 2025 at 8:21 AM
"If you find something that you love, just follow it. Keep your eyes open, connect to others, and trust yourself," says Jana Wolf, head of the "Mathematical Modelling of Cellular Processes" lab at #mdcBerlin.
👇 Watch the video & share to inspire others! 👇 #mdcDiversity #WomenInSTEM #WomenInScience
👇 Watch the video & share to inspire others! 👇 #mdcDiversity #WomenInSTEM #WomenInScience
Very excited to be co-organising the new EMBL-EBI and EMBO practical course "Methods for Infectious disease modelling using genomics".
Have a look at the programme and register your interest now if you like!
Have a look at the programme and register your interest now if you like!
We're bringing you a brand new course for 2025! This EMBO practical course will introduce concepts, methods and tools for carrying out infectious disease modelling, as well as for developing models further using the power of genomics.
Register your interest: www.ebi.ac.uk/training/eve...
💻🧬🧪🦠🧫
Register your interest: www.ebi.ac.uk/training/eve...
💻🧬🧪🦠🧫
January 9, 2025 at 1:22 PM
Very excited to be co-organising the new EMBL-EBI and EMBO practical course "Methods for Infectious disease modelling using genomics".
Have a look at the programme and register your interest now if you like!
Have a look at the programme and register your interest now if you like!
Reposted by Leonie Lorenz
Josie Bryant and I have a 3yr joint postdoc project at Sanger & EBI (ESPOD)
Topic: Developing new bioinformatic and modelling approaches for exciting new longitudinal microbiome datasets
Project details: www.embl.org/editorhub/wp...
To apply: www.ebi.ac.uk/research/pos...
Topic: Developing new bioinformatic and modelling approaches for exciting new longitudinal microbiome datasets
Project details: www.embl.org/editorhub/wp...
To apply: www.ebi.ac.uk/research/pos...
www.embl.org
August 8, 2024 at 8:26 AM
Josie Bryant and I have a 3yr joint postdoc project at Sanger & EBI (ESPOD)
Topic: Developing new bioinformatic and modelling approaches for exciting new longitudinal microbiome datasets
Project details: www.embl.org/editorhub/wp...
To apply: www.ebi.ac.uk/research/pos...
Topic: Developing new bioinformatic and modelling approaches for exciting new longitudinal microbiome datasets
Project details: www.embl.org/editorhub/wp...
To apply: www.ebi.ac.uk/research/pos...
Excited to be at my first annual conference of the microbiology society #microbio24! Come by my poster (B082) on Wednesday if you want to talk about mathematical modelling and/or the population genetics of Streptococcus pneumoniae.
April 8, 2024 at 5:34 PM
Excited to be at my first annual conference of the microbiology society #microbio24! Come by my poster (B082) on Wednesday if you want to talk about mathematical modelling and/or the population genetics of Streptococcus pneumoniae.