Applied Systems Biology
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appsysbio.bsky.social
Applied Systems Biology
@appsysbio.bsky.social
Leibniz Institute: Hans Knöll Institute
Jena

The research group Applied Systems Biology is concerned with the mathematical modeling and computer simulation of infection processes caused by human-pathogenic fungi.
Reposted by Applied Systems Biology
🍁 Meet our #October #calendar 2025 feature: Zoltán Cseresnyés, imaging specialist at our @appsysbio.bsky.social research group. From 1980s Hungary to super-resolution microscopy at Cambridge, he now helps researchers unlock insights from complex images. 🔬🌌
lmy.de/LsPim

#FacesOfScience #LeibnizHKI
October 17, 2025 at 2:27 PM
Reposted by Applied Systems Biology
🧵1/2- So so happy to share our very first publication from the #BIDlab! 🥳 🎉 🙏

A huge thanks to our super talented PhD student Miriana Battista and our amazing collaborators @appsysbio.bsky.social and Christoph Saffer for the work and support 👌 🙏

pubs.acs.org/doi/full/10....
Mechanistic Insights into the Role of Extracellular Vesicles at the Bacterial–Host Interface
Bacterial and human cells produce extracellular vesicles (EVs) in response to diverse stimuli, e.g., toxins, oxidative stress, nutrient depletion, or high cell density. Here, we describe a cocultivation platform that allows recovery of mixed extracellular vesicles (mix-EVs) produced simultaneously by both cell types. We investigated interactions between Gram-positive and Gram-negative bacteria (Streptococcus pyogenes, Staphylococcus aureus, Escherichia coli, and Neisseria meningitidis) and human peripheral blood mononuclear cells (PBMCs). The production of the mix-EVs population decreased with higher bacterial concentrations. Exposing PBMCs to mix-EVs repressed the general transcriptomic signature, in contrast with a significant upregulation generated by single bacterial-EVs. However, mix-EVs-derived IL-1β upregulation was confirmed at the protein level. Inhibition experiments showed that IL-1β production involved TLR2 and TLR4 signaling, acting through IRAK-1 and TRAF6 related pathways. This approach provides a new platform for the study of EVs at the pathogen–host interface and presents mechanistic insights into the effect of EVs on an infected host.
pubs.acs.org
November 17, 2025 at 8:17 AM
🎉 SBMI 2025 was an inspiring experience!
It has been an enriching experience, discussions, and new collaborations
Thanks to all participants for their contributions. 🙏
✈️ Wishing everyone a safe journey home, see you at the next IbSB2026!

#MicrobialInfections #ScientificCommunity#HKIJena
September 19, 2025 at 3:40 PM
🎉 We’re excited to kick off SBMI 2025 in Jena!
Scientists meet to discuss microbiology, immunology & systems biology.

🔗 asb-conference.hki-jena.de

#SBMI2025 #SystemsBiology #Conference
September 18, 2025 at 10:22 AM
🎓 PhD position available!
Automated image processing of immune interactions in organ-on-chip models @ Microverse Cluster (Prof. Figge, HKI Jena).

🗓️ Apply by Oct 5, 2025
🔗 www.microverse-cluster.de/files/conten...

#PhDPosition #Microverse #BioimageAnalysis
www.microverse-cluster.de
September 15, 2025 at 12:27 PM
🎉Exciting news from Applied Systems Biology @ HKI 🎉
We’re welcoming three new members:

• Lennart Köhler — Technical Assistant
• Behnaz Asiabanha — Master student and Assistant
• Mariia Kolchanova — Master student and Assistant

Great to have you on board! 🚀
August 27, 2025 at 9:35 AM
🎙️ Excited to welcome Prof. Somenath Bakshi (University of Cambridge) as an invited speaker at SBMI 2025!
www.bakshilab.net

Early Bird Registration extended!
Reduced registration fee until:
🗓️ 20 August 2025 at 23:59 (CEST)
asb-conference.hki-jena.de

#SBMI2025 #SystemsBiology #Conference
August 15, 2025 at 12:18 PM
📢 New article from our team!

A model of neutrophil transendothelial migration at single-cell resolution has just been published in npj Systems Biology & Applications.

🔗 www.nature.com/articles/s41...

#SystemsBiology #Publication#Neutrophils #ComputationalModeling #AppliedSystemsBiology #HKIJena
Complex-mediated evasion: modeling defense against antimicrobial peptides with application to human-pathogenic fungus Candida albicans - npj Systems Biology and Applications
npj Systems Biology and Applications - Complex-mediated evasion: modeling defense against antimicrobial peptides with application to human-pathogenic fungus Candida albicans
www.nature.com
July 22, 2025 at 1:38 PM
Final call for abstracts!!

Submit your abstracts for (SBMI 2025) by:
🗓️ July 15, 2025 at 23:59 (CEST

Take advantage of Early Bird Registration until:
🗓️ July 31, 2025 at 23:59 (CEST)

🔗 asb-conference.hki-jena.de

#SBMI2025 #CallForAbstracts #SystemsBiology
July 11, 2025 at 8:13 AM
Reposted by Applied Systems Biology
📢 SBMI 2025
Join us at the 8th International Symposium "Systems Biology of Microbial Infection", Sept 18–19, 2025 in Jena

Submit your abstract & consider applying for a Tandem-Talk!

Info & speakers: asb-conference.hki-jena.de

#SystemsBiology #InfectionBiology #BioimageAnalysisTools
April 15, 2025 at 12:03 PM
Reposted by Applied Systems Biology
🎓 Are you a Bachelor or Master students?
📢 SBMI 2025 is free of charge for you!

Join us at the 8th International Symposium "Systems Biology of Microbial Infection",
📅 September 18–19, 2025 in Jena 🇩🇪
🔗 More info: lnkd.in/ej7w9MwH

#SystemsBiology #BioimageAnalysis #InfectionBiology
May 5, 2025 at 3:37 PM
📢 New JIPipe tutorials now on YouTube!🎥

Learn how to build and analyze visual pipelines for bioimage data.
👉 www.youtube.com/@appliedsyst...
Feel free to share your feedback and questions!

#JIPipe #BioimageAnalysis #OpenSource
Applied Systems Biology
www.youtube.com
May 13, 2025 at 8:25 AM
📢 Excited to welcome Liliana Angeles Martinez to our team at Applied Systems Biology!
Her expertise in cell–cell interactions and spatio-temporal modeling brings valuable new perspectives to our research.

#SystemsBiology #CellInteractions #SpatioTemporalModeling #HKIJena #AppliedSystemsBiology
May 8, 2025 at 11:01 AM
🎓 Are you a Bachelor or Master students?
📢 SBMI 2025 is free of charge for you!

Join us at the 8th International Symposium "Systems Biology of Microbial Infection",
📅 September 18–19, 2025 in Jena 🇩🇪
🔗 More info: lnkd.in/ej7w9MwH

#SystemsBiology #BioimageAnalysis #InfectionBiology
May 5, 2025 at 3:37 PM
📢 SBMI 2025
Join us at the 8th International Symposium "Systems Biology of Microbial Infection", Sept 18–19, 2025 in Jena

Submit your abstract & consider applying for a Tandem-Talk!

Info & speakers: asb-conference.hki-jena.de

#SystemsBiology #InfectionBiology #BioimageAnalysisTools
April 15, 2025 at 12:03 PM
🎉 Girl's and Boy's Day 2025

This year we were delighted to take part in the Forsche Schüler Tag/Boys' and Girls' Day by introducing five interested ninth graders (15-16 years old) to the exciting world of systems biology. 🧪🔬

#STEM #JIPipe #SystemsBiology #ScienceEducation
April 11, 2025 at 2:33 PM
🎉 Congrats to our colleague Simone Piccioni for winning a Poster Prize at the Joint Annual Meeting 2025 of FungiNet and IMIHM XV in Würzburg! 🏆
A big shoutout for this amazing achievement! 👏

#Science #FungiNet #IMIHM #PosterPrize #InfectionResearch #BioImageAnalysis
April 2, 2025 at 9:36 AM
🦠 Fungal Pathogens & Phagosome Evasion 🦠

New research explores how convergent evolution has shaped fungal effectors to penetrate host phagosomal membranes.

www.biorxiv.org/content/10.1...

#Microbiology #FungalPathogens #InfectionBiology #Research #PathogenicFungi
Convergent evolution of a fungal effector enabling phagosome membrane penetration
The ability of pathogens to evade phagosomal killing is critical for their pathogenicity. Previously, we had identified the HscA effector protein in the clinically important fungal pathogen Aspergillu...
www.biorxiv.org
March 10, 2025 at 12:47 PM
🚀 We are now on Bluesky!

We are the Applied Systems Biology research group, specializing in mathematical modeling and computer simulation of infection processes. 📊🦠

🌍 Website: asb.hki-jena.de

💻 GitHub: github.com/applied-syst...

#ImageAnalysis #BlueskyScience #BioimageAnalysisTools
Applied Systems Biology – HKI JenaContinueContinueContinue
asb.hki-jena.de
March 5, 2025 at 3:36 PM