Matthieu Najm

Deconvolution toolbox for spatial transcriptomics

Can't wait to be at @jobim2025.bsky.social #JOBIM25 to present a short demo on the companion ShinyApp (shorturl.at/Os7kB) of our review "Cell-type deconvolution for spatial transcriptomics" recently published in @natrevgenet.nature.com ! #spatial #genomics

07.07.2025 09:34 — 👍 4    🔁 2    💬 0    📌 0

Last week to register ! Don't miss this great opportunity

10.06.2025 14:00 — 👍 2    🔁 2    💬 0    📌 0

Yes, there's "accessible" in my group's title. Come at me, Trump!

Just kidding, don't come at me, except if you're looking for a job in biomedical AI. Hiring at all levels, up to 100% of E13.

If you're enthusiastic about science and open source, consider applying! Please help spread the word. :)

25.03.2025 13:29 — 👍 7    🔁 6    💬 0    📌 0

Big turnout today in Paris to show solidarity with US-based scientists ❤️ 🗽 #StandUpforScienceFrance @pasteur.fr

07.03.2025 15:54 — 👍 9    🔁 2    💬 0    📌 0

Very grateful to have been awarded a #MSCA post-doc fellowship! With Felix Hol and Teun Bousema, we will bring BuzzWatch to the field to study mosquito behavior in malaria-endemic regions.

Starting in #RadboudUmc, our first goal is to make BuzzWatch portable enough to be transported by bicycle 🦟🚲🇳🇱.

11.02.2025 18:27 — 👍 7    🔁 1    💬 0    📌 0

Graphical abstract of BioChatter

Applying LLMs to biomedical research today can go one of two ways: we either use a closed-source web app, or we get coding ourselves. Many researchers lack training for the latter, so their only choice is the former. We want to change that. www.nature.com/articles/s41...

05.02.2025 09:15 — 👍 78    🔁 37    💬 2    📌 2

BuzzWatch: uncovering multi-scale temporal patterns in mosquito behavior through continuous long-term monitoring Understanding the temporal dynamics of mosquito behavior is essential for developing effective interventions against pathogen transmission. However, limited knowledge exists about the environmental, p...

Thrilled to share 'BuzzWatch', my post-doc work with Felix Hol and @lambrechtslab.bsky.social

➡️Filming mosquitoes in a cage with a €15 camera but for 700h(1month) revealed fascinating insights into their behavior⌛🦟🎥⏳

preprint🔍 doi.org/10.1101/2025...
DIY guide 🛠️ theomaire.github.io/buzzwatch
🧵⬇️

27.01.2025 17:35 — 👍 22    🔁 9    💬 2    📌 2

The Mathematics of Artificial Intelligence: In this introductory and highly subjective survey, aimed at a general mathematical audience, I showcase some key theoretical concepts underlying recent advancements in machine learning. arxiv.org/abs/2501.10465

22.01.2025 09:11 — 👍 140    🔁 40    💬 2    📌 1

Integration of clinical, pathological, radiological, and transcriptomic data improves prediction for first-line immunotherapy outcome in metastatic non-small cell lung cancer Nature Communications - Overall survival in metastatic non-small cell lung cancer is improved by immunotherapy but individual responses widely vary, and predictive biomarkers are urgently needed....

Excited to share our latest #research from @institutcurie.bsky.social on multimodal prediction of #immunotherapy outcome in #lungcancer, published with @springernature.bsky.social in @naturecomms.bsky.social

rdcu.be/d56Fn

@fondationarc.bsky.social & [PRAIRIE Institute](prairie-institute.fr)

13.01.2025 17:12 — 👍 8    🔁 6    💬 0    📌 1

Thank you to my PhD supervisors at the Center for Computational Biology at Mines Paris and the Computational Systems Biology Group at Institut Curie. Grateful for our collaborators at Institut Necker Enfants Malade and the support from Vaincre La Mucoviscidose. 5/5

20.12.2024 15:30 — 👍 1    🔁 0    💬 0    📌 0

If you are interested in CFTR interactors and the consequences of the absence of CFTR on signalling pathways, you can explore the Shiny application at njmmatthieu.shinyapps.io/shinyapp/ for convenient browsing of the CF network. 4/5

20.12.2024 15:30 — 👍 0    🔁 0    💬 1    📌 0

Finally, an important contribution of the present work is that the adopted global methodology of the CF context can be used as a common framework for other monogenic diseases. 3/5

20.12.2024 15:30 — 👍 0    🔁 0    💬 1    📌 0

We adopted a data-driven systems biology approach to retrieve CF dysregulated signalling pathways. Our findings point to candidate therapeutic targets such as SYK and PI3KCA, for which specific inhibitors are already known. 2/5

20.12.2024 15:30 — 👍 0    🔁 0    💬 1    📌 0

From CFTR to a CF signalling network: a systems biology approach to study Cystic Fibrosis - BMC Genomics Background Cystic Fibrosis (CF) is a monogenic disease caused by mutations in the gene coding the Cystic Fibrosis Transmembrane Regulator (CFTR) protein, but its overall physio-pathology cannot be sol...

Excited to share the final work from my PhD: our study on developing a signalling network gathering the molecular dysregulations caused by the absence of CFTR in cystic fibrosis (CF).
Read the full article published in the journal BMC Genomics at: doi.org/10.1186/s128... 1/5

20.12.2024 15:30 — 👍 1    🔁 2    💬 1    📌 0