Lmst

#systemsbiology

Job Alert

Postdoctoral Researcher in Inter-organ Communication between Liver and Heart

Deadline: 2026-01-07
Location: Germany, Heidelberg

https://www.academiceurope.com/ads/postdoctoral-researcher-in-inter-organ-communication-between-liver-and-heart/

#hiring #PhD #biochemistry #systemsbiology #bioinformatics #lifescience #hiring #proteomics #postdoc

🧬 Can combining LLMs with full-length RNA isoforms unlock hidden cellular diversity?

🔗 Advancing automated cell type annotation with large language models and single-cell isoform sequencing. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.11.008

📚 CSBJ: https://www.csbj.org/

#LargeLanguageModels #Genomics #CellBiology #SingleCellRNASequencing #AlternativeSplicing #LLMs #SystemsBiology

Advancing automated cell type annotation with large language models and single-cell isoform sequencing. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.11.008

🧬 Can treating codon sequences like physical systems unlock better mRNA and protein expression?

🔗 A statistical-physics approach for codon usage optimisation. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2024.07.020

📚 CSBJ: https://www.csbj.org/

#Genomics #CodonOptimization #SyntheticBiology #GeneticEngineering #SystemsBiology #GeneDesign #MolecularBiology

A statistical-physics approach for codon usage optimisation. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2024.07.020

🧬 How can AI bridge the gap between histology and spatial transcriptomics?

🔗 SegDecon bridges histology and transcriptomics through AI-based nuclei segmentation and image-informed spatial deconvolution. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.10.041

📚 CSBJ: https://www.csbj.org/

#SpatialTranscriptomics #Histology #Genomics #SystemsBiology #NucleiSegmentation #AI #CellBiology #TissueBiology #Bioimaging

SegDecon bridges histology and transcriptomics through AI-based nuclei segmentation and image-informed spatial deconvolution. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.10.041

🔥 How does cryotherapy reshape your metabolism after intense exercise?

🔗 1H NMR urinary metabolomic analysis in recreational athletes: Impact of physical exercise, high intensity interval training and whole body cryostimulation. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.05.007

📚 CSBJ: https://www.csbj.org/

#Metabolomics #SportsScience #HIIT #Cryotherapy #MetabolicHealth #NMR #SportsMedicine #ExercisePhysiology #AthleteRecovery #SystemsBiology #SportsMedicine

1H NMR urinary metabolomic analysis in recreational athletes: Impact of physical exercise, high intensity interval training and whole body cryostimulation. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.05.007

🧬 Can cells “remember” their identity without changing their DNA?

🔗 Epigenetic memory: The role of the crosstalk between histone modifications and DNA methylation. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.08.034

📚 CSBJ: https://www.csbj.org/

#Epigenetics #Chromatin #GeneRegulation #DNA #MolecularBiology #SyntheticBiology #CellEngineering #Genomics #SystemsBiology #DNAmethylation

Epigenetic memory: The role of the crosstalk between histone modifications and DNA methylation. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.08.034

It's tomorrow!

Gwenn has done stellar work and taken things much farther than I've been able to follow — good thing that Véronique Stoven was her main advisor — and I'm very impressed by all that she has achieved and how much she's grown.

#MachineLeaning #SystemsBiology #BreastCancer

Photo of a sign indicating the room for the PhD defense of Gwenn Guichaoua, tomorrow at 10am. The title is

Machine Learning and Systems Biology approaches to find new therapeutic strategies for ATIP3-deficient Triple Negative Breast Cancer

Job Alert

JUNIOR RESEARCH GROUPS (F/M/D) AI IN HEALTH AND INFECTION DISEASE

Deadline: 2025-11-26
Location: Germany, Braunschweig

https://www.academiceurope.com/ads/junior-research-groups-f-m-d-ai-in-health-and-infection-disease/

#hiring #AI #HealthResearch #InfectionBiology #physics #computerscience #mathematics #MachineLearning #SystemsBiology

Job Alert

JUNIOR RESEARCH GROUPS (F/M/D) IN THE FIELD OF INFECTION BIOLOGY

Deadline: 2025-11-26
Location: Germany, Braunschweig

https://www.academiceurope.com/ads/junior-research-groups-f-m-d-in-the-field-of-infection-biology/

#hiring #InfectionResearch #Microbiology #immunology #SystemsBiology #LifeSciences #vaccinology #Postdoc

New review out: "Metabolic Modeling of Host–Microbe Interactions". In the article, we:
Outline strategies for coupling host and microbial genome scale metabolic models #GEM
Highlight successful applications revealing #HostMicrobiome cross-feeding
Discuss challenges (regulation, dynamics, model validation) and possible solutions
Outline fields which are worthwhile exploring from a #SystemsBiology perspective

https://doi.org/10.1016/j.csbj.2025.10.006

#MetabolicModeling #MicrobiomeScience #ComputationalBiology

Tribute to Béla Novák (1956–2025) by Alexis Barr, Francis Barr and John Tyson, in J Cell Sci.

#CellBiology #SystemsBiology #CellCycle

https://doi.org/10.1242/jcs.264438

📢 Final Call – Research Paper Activity @ BioResire!

📞 Contact / WhatsApp: 6301352398
📧 Email: [info@bioresire.in]()
⚡ Limited seats! Don’t miss this chance to boost your academic & professional growth with BioResire Research Labs.
#Bioinformatics #Genomics #Proteomics #ComputationalBiology #BigDataInBiology #SystemsBiology #BiotechInnovation #DataScienceInLifeSciences #MolecularModeling #GenomeAnalysis #NextGenSequencing #BioinformaticsResearch #BioinformaticsTools #AIInBiology

🧩 How are skin and gut inflammation connected?

🔗 Identification of shared and unique mechanisms of atopic dermatitis and ulcerative colitis by construction and computational analysis of disease maps. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.09.008

📚 CSBJ: https://www.csbj.org/

#Immunology #Dermatology #Gastroenterology #SystemsBiology #PrecisionMedicine #DrugDiscovery #ComputationalBiology #InflammationResearch #Biomarkers #TranslationalMedicine

Identification of shared and unique mechanisms of atopic dermatitis and ulcerative colitis by construction and computational analysis of disease maps. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.09.008

🐟🪰 Separated by evolution, connected by the same developmental code.

🔗 Digital cousins: Simultaneous optimization of one model for BMP signaling in distant relatives reveals essential core. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.08.021

📚 CSBJ: https://www.csbj.org/

#BMPsignaling #DevelopmentalBiology #SystemsBiology #ComputationalBiology #EvolutionaryBiology #BiophysicalModeling #Bioinformatics #SyntheticBiology #QuantitativeBiology

Digital cousins: Simultaneous optimization of one model for BMP signaling in distant relatives reveals essential core. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.08.021

What is cause, what is effect,
If the effect causes the cause to change?
Where effect and cause, and cause and effect,
Are entangled in a complex web,
The mind is lost
And ponders in vain
The principal cause of all.

Source: A First Course in Systems Biology, 3rd ed, 2025, CRC

#quotes
#books
#SystemsBiology

A First Course in Systems Biology, 3rd ed, 2025, CRC
A First Course in Systems Biology, Third Edition is an introduction to the growing field of systems biology for advanced undergraduates and graduate students. Its focus is the design and analysis of computational models and their applications to diverse biomedical phenomena, from simple networks and kinetics to complex pathway systems, signal transduction, personalized medicine, and interacting populations. The book begins with the fundamentals of computational modeling, then reviews features of the molecular inventories that bring biological systems to life and ends with case studies that reflect some of the frontiers in systems biology. In this way, the First Course provides the reader with a comprehensive background and with access to methods for executing standard tasks of biomedical systems analysis, exposure to the modern literature, and a foundation for launching into specialized projects that address biomedical questions with theoretical and computational means.

This third edition has been thoroughly updated. It provides an introduction to agent-based and multiscale modeling, a deeper account of biological design principles, and the optimization of metabolic flux distributions. This edition also discusses novel topics of synthetic biology, personalized medicine, and virtual clinical trials that are just emerging on the horizon of this field.

New preprint, with a modest contribution from yours truly, on proteo-transcriptomic changes in the aging mammalian brain.

https://www.biorxiv.org/content/10.1101/2025.08.14.669896v1

#SystemsBiology #Proteomics #Transcriptomics #neuroscience

🧪 Could digital modeling redefine how we grow CHO cells for biologics?

🔗 Wheels turning: CHO cell modeling moves into a digital biomanufacturing era. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.06.035

📚 CSBJ: https://www.csbj.org/

#Biomanufacturing #CHOCells #DigitalTwins #BiotechInnovation #DigitalBiomanufacturing #Bioprocessing #Biologics #CellCulture #GenomeScaleModels #SmartManufacturing #BiopharmaInnovation #SystemsBiology #Biotechnology #Bioinformatics

Wheels turning: CHO cell modeling moves into a digital biomanufacturing era. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.06.035

Explore #metabolic #networks!
Join our online course “Constraint-based modeling & design with CellNetAnalyzer & CNApy” 🧬
🗓 4–5 Nov 25
🔎 Theory, live demos & hands-on sessions—no prereqs! #Beginner course!
🔗 More Information and Registration: https://www.denbi.de/training-courses-2025/1912-constraint-based-modeling-and-design-of-metabolic-networks-with-cellnetanalyzer-and-cnapy-2
#SystemsBiology #FluxBalance

Virtual cells
https://udara.io/science/virtual-cells
https://news.ycombinator.com/item?id=44295725

Friggin' cool ! A synthetic cell phage cycle 👍️ | bioRxiv
https://mastodon.social/@persagen/114697081002977107

#SyntheticBiology #VirtualCells #DigitalTwins #SystemsBiology #virology

🔎 How can AI-powered tools help scientists uncover hidden connections in disease research?

🔗 Darling (v2.0): Mining disease-related databases for the detection of biomedical entity associations. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.06.025

📚 CSBJ: https://www.csbj.org/

#AIinScience #BiomedicalTextMining #Genomics #PrecisionMedicine #Bioinformatics #OpenScience #BiomedicalResearch #BiomedicalAI #LiteratureMining #SystemsBiology #Omics #KnowledgeDiscovery