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#systemsbiology — Public Fediverse posts

Live and recent posts from across the Fediverse tagged #systemsbiology, aggregated by home.social.

  1. 🦠 Could we outsmart antibiotic resistance by turning bacteria against themselves?

    🔗 Rational Targeting and gRNA Design for Enhancing Quorum Quenching in Pseudomonas aeruginosa PAO1. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0089

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #AntimicrobialResistance #AMR #CRISPR #GeneEditing #SyntheticBiology #SystemsBiology #Microbiology #Biotechnology #DrugResistance #QuorumSensing #Biofilms #Genomics

  2. 🦠 Could we outsmart antibiotic resistance by turning bacteria against themselves?

    🔗 Rational Targeting and gRNA Design for Enhancing Quorum Quenching in Pseudomonas aeruginosa PAO1. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0089

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #AntimicrobialResistance #AMR #CRISPR #GeneEditing #SyntheticBiology #SystemsBiology #Microbiology #Biotechnology #DrugResistance #QuorumSensing #Biofilms #Genomics

  3. 🦠 Could we outsmart antibiotic resistance by turning bacteria against themselves?

    🔗 Rational Targeting and gRNA Design for Enhancing Quorum Quenching in Pseudomonas aeruginosa PAO1. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0089

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #AntimicrobialResistance #AMR #CRISPR #GeneEditing #SyntheticBiology #SystemsBiology #Microbiology #Biotechnology #DrugResistance #QuorumSensing #Biofilms #Genomics

  4. 🦠 Could we outsmart antibiotic resistance by turning bacteria against themselves?

    🔗 Rational Targeting and gRNA Design for Enhancing Quorum Quenching in Pseudomonas aeruginosa PAO1. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0089

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #AntimicrobialResistance #AMR #CRISPR #GeneEditing #SyntheticBiology #SystemsBiology #Microbiology #Biotechnology #DrugResistance #QuorumSensing #Biofilms #Genomics

  5. 🦠 Could we outsmart antibiotic resistance by turning bacteria against themselves?

    🔗 Rational Targeting and gRNA Design for Enhancing Quorum Quenching in Pseudomonas aeruginosa PAO1. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0089

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #AntimicrobialResistance #AMR #CRISPR #GeneEditing #SyntheticBiology #SystemsBiology #Microbiology #Biotechnology #DrugResistance #QuorumSensing #Biofilms #Genomics

  6. 🧬 Could a single metric decode how genes are regulated across cells?

    🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0044

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics

  7. 🧬 Could a single metric decode how genes are regulated across cells?

    🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0044

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics

  8. 🧬 Could a single metric decode how genes are regulated across cells?

    🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0044

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics

  9. 🧬 Could a single metric decode how genes are regulated across cells?

    🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0044

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics

  10. 🧬 Could a single metric decode how genes are regulated across cells?

    🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0044

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics

  11. Researchers have developed a method to deduce the complete protein landscape (proteome profile) of a living cell without destroying it by utilizing Raman spectroscopy. This light-based technique allows scientists to observe exactly how cells balance internal stability with the flexibility needed to survive changing environments.
    #Biophysics #Proteomics #Optics #SystemsBiology #sflorg
    sflorg.com/2026/04/phy04282601

  12. International Course on #Computational #SystemsBiology of #Cancer taking place at Institut Curie from September 21st – 25th, 2026 (Paris campus).

    The course will review current methods and tools for analysing and interpreting multimodal genomic data, with a focus on generative artificial intelligence and network approaches, as well as concrete applications related to cancer.

    More details and registration: training.institut-curie.org/co

  13. Welcome to the latest edition of the "What Is" series, presented by the Scientific Frontline publication. In this research report, we delve into one of the most ambitious, technologically demanding, and philosophically profound frontiers in modern biological science: Connectomics.
    #WhatIs #Neuroscience #SystemsBiology #ComputationalNeuroscience #ArtificialIntelligence #Bioinformatics #sflorg
    sflorg.com/2026/04/wi04262601.

  14. ⚛️ Could life itself be a quantum phenomenon disguised as biology?

    🔗 Quantum Biology Using Ultrafast Integrative and Molecular Engineering Tools: A Perspective. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0024

    📚 CSBJ Quantum Biology and Biophotonics: spj.science.org/journal/csbj/q

    #QuantumBiology #QuantumPhysics #MolecularBiology #ProteinEngineering #Biophysics #Biochemistry #Bioinformatics #SystemsBiology #MolecularDynamics #Lifesciences

  15. ⚛️ Could life itself be a quantum phenomenon disguised as biology?

    🔗 Quantum Biology Using Ultrafast Integrative and Molecular Engineering Tools: A Perspective. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0024

    📚 CSBJ Quantum Biology and Biophotonics: spj.science.org/journal/csbj/q

    #QuantumBiology #QuantumPhysics #MolecularBiology #ProteinEngineering #Biophysics #Biochemistry #Bioinformatics #SystemsBiology #MolecularDynamics #Lifesciences

  16. ⚛️ Could life itself be a quantum phenomenon disguised as biology?

    🔗 Quantum Biology Using Ultrafast Integrative and Molecular Engineering Tools: A Perspective. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0024

    📚 CSBJ Quantum Biology and Biophotonics: spj.science.org/journal/csbj/q

    #QuantumBiology #QuantumPhysics #MolecularBiology #ProteinEngineering #Biophysics #Biochemistry #Bioinformatics #SystemsBiology #MolecularDynamics #Lifesciences

  17. ⚛️ Could life itself be a quantum phenomenon disguised as biology?

    🔗 Quantum Biology Using Ultrafast Integrative and Molecular Engineering Tools: A Perspective. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0024

    📚 CSBJ Quantum Biology and Biophotonics: spj.science.org/journal/csbj/q

    #QuantumBiology #QuantumPhysics #MolecularBiology #ProteinEngineering #Biophysics #Biochemistry #Bioinformatics #SystemsBiology #MolecularDynamics #Lifesciences

  18. ⚛️ Could life itself be a quantum phenomenon disguised as biology?

    🔗 Quantum Biology Using Ultrafast Integrative and Molecular Engineering Tools: A Perspective. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0024

    📚 CSBJ Quantum Biology and Biophotonics: spj.science.org/journal/csbj/q

    #QuantumBiology #QuantumPhysics #MolecularBiology #ProteinEngineering #Biophysics #Biochemistry #Bioinformatics #SystemsBiology #MolecularDynamics #Lifesciences

  19. 🧬 Can AI truly decode gene expression, or is it being misled by too much data?

    🔗 Artificial Intelligence in Bulk RNA-Seq: Challenges and Potential Solutions. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0039

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #ArtificialIntelligence #MachineLearning #Bioinformatics #Genomics #RNAseq #ComputationalBiology #SystemsBiology #AI #PrecisionMedicine #BigData #AIinHealthcare

  20. 🧬 Can AI truly decode gene expression, or is it being misled by too much data?

    🔗 Artificial Intelligence in Bulk RNA-Seq: Challenges and Potential Solutions. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0039

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #ArtificialIntelligence #MachineLearning #Bioinformatics #Genomics #RNAseq #ComputationalBiology #SystemsBiology #AI #PrecisionMedicine #BigData #AIinHealthcare

  21. 🧬 Can AI truly decode gene expression, or is it being misled by too much data?

    🔗 Artificial Intelligence in Bulk RNA-Seq: Challenges and Potential Solutions. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0039

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #ArtificialIntelligence #MachineLearning #Bioinformatics #Genomics #RNAseq #ComputationalBiology #SystemsBiology #AI #PrecisionMedicine #BigData #AIinHealthcare

  22. 🧬 Can AI truly decode gene expression, or is it being misled by too much data?

    🔗 Artificial Intelligence in Bulk RNA-Seq: Challenges and Potential Solutions. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0039

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #ArtificialIntelligence #MachineLearning #Bioinformatics #Genomics #RNAseq #ComputationalBiology #SystemsBiology #AI #PrecisionMedicine #BigData #AIinHealthcare

  23. 🧬 Can AI truly decode gene expression, or is it being misled by too much data?

    🔗 Artificial Intelligence in Bulk RNA-Seq: Challenges and Potential Solutions. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0039

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #ArtificialIntelligence #MachineLearning #Bioinformatics #Genomics #RNAseq #ComputationalBiology #SystemsBiology #AI #PrecisionMedicine #BigData #AIinHealthcare

  24. ⚛️ Can we design drugs that stabilize biomolecular interactions instead of blocking them?

    🔗 In Silico Analysis of Potential Stabilizer Binding Sites at Protein–RNA Interfaces. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0016

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #StructuralBiology #DrugDiscovery #ComputationalBiology #RNA #MolecularBiology #Bioinformatics #DrugDesign #SystemsBiology #MedicinalChemistry

  25. 🤯 What if most “biological insights” are just mixed-up signals we never untangled?

    🔗 Integrative Learning of Disentangled Representations from Single-Cell RNA-Sequencing Datasets. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0015

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #SystemsBiology #Genomics #Bioinformatics #ComputationalBiology #AIinBiology #SingleCell #MachineLearning #DataScience #LifeSciences

  26. 🤯 What if most “biological insights” are just mixed-up signals we never untangled?

    🔗 Integrative Learning of Disentangled Representations from Single-Cell RNA-Sequencing Datasets. Computational and Structural Biotechnology Journal (CSBJ). DOI: doi.org/10.34133/csbj.0015

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #SystemsBiology #Genomics #Bioinformatics #ComputationalBiology #AIinBiology #SingleCell #MachineLearning #DataScience #LifeSciences

  27. 🧬 Can we map the cascade of gene activity that guides cells through differentiation?

    🔗 Pseudotimecascade Visualizes Gene Expression Cascade in Pseudotime Analysis. Computational and Structural Biotechnology Journal (CSBJ). spj.science.org/doi/epdf/10.34

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #SingleCell #Genomics #Bioinformatics #SystemsBiology #GeneExpression #ComputationalBiology

  28. 🧬 Can we map the cascade of gene activity that guides cells through differentiation?

    🔗 Pseudotimecascade Visualizes Gene Expression Cascade in Pseudotime Analysis. Computational and Structural Biotechnology Journal (CSBJ). spj.science.org/doi/epdf/10.34

    📚 CSBJ - A Science Partner Journal: spj.science.org/journal/csbj

    #SingleCell #Genomics #Bioinformatics #SystemsBiology #GeneExpression #ComputationalBiology

  29. 📊 Bioinformatics - Jan 2025

    • Population-scale modeling maps the tumor immune microenvironment
    • RNA–small molecule prediction advances structure-free drug discovery
    • Improved microbiome analytics refine association testing

    pir.sh/9OxdzbYdBl

    #Bioinformatics #CancerGenomics #SystemsBiology

  30. #Bacterial #plasmids utilize two distinct survival strategies—stealth and manipulation—to drive a "stealth-first" mechanism where #antimicrobial resistance genes are initially acquired by stealthy plasmids before being rapidly disseminated by manipulative ones.
    #Biology #MolecularBiology #Bioinformatics #SystemsBiology #sflorg
    sflorg.com/2026/01/bio01272601

  31. 🧬 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: doi.org/10.1016/j.csbj.2025.11

    📚 CSBJ: csbj.org/

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

  32. 🧬 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: doi.org/10.1016/j.csbj.2024.07

    📚 CSBJ: csbj.org/

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

  33. 🧬 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: doi.org/10.1016/j.csbj.2025.10

    📚 CSBJ: csbj.org/

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

  34. 🧬 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: doi.org/10.1016/j.csbj.2025.10

    📚 CSBJ: csbj.org/

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

  35. 🔥 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: doi.org/10.1016/j.csbj.2025.05

    📚 CSBJ: csbj.org/

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

  36. 🧬 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: doi.org/10.1016/j.csbj.2025.08

    📚 CSBJ: csbj.org/

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

  37. 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

  38. 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

  39. 🔎 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: doi.org/10.1016/j.csbj.2025.06

    📚 CSBJ: csbj.org/

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

  40. 🧬 Are we overcomplicating proteomics—when a few unique sequences can tell the whole story?

    🔗 Uniquome: Construction and decoding of a novel proteomic atlas that contains new peptide entities. Computational and Structural Biotechnology Journal, DOI: doi.org/10.1016/j.csbj.2025.05

    📚 CSBJ: csbj.org/

    #Proteomics #Uniquome #PeptideAtlas #Bioinformatics #PrecisionBiology #TranslationalResearch #SystemsBiology #MolecularBiology #PrecisionMedicine

  41. 🚨 New paper out!

    Novel algorithms for uncertainty quantification in systems biology using conformal inference.
    Joint work with Alberto Portela and Marcos Matabuena.

    📄 Read more: doi.org/10.1371/journal.pcbi.1
    #SystemsBiology #UQ

  42. A synthetic protein-level neural network in mammalian cells
    science.org/doi/10.1126/scienc

    Bringing neural networks to life
    A synthetic protein-based winner-take-all neural network controls cell fate decisions
    science.org/doi/10.1126/scienc

    Chen et al. describe a protein-level synthetic circuit framework that implements a “winner-take-all” neural network capable of classifying the relative abundance of multiple inputs to modify the circuit output. This network replicates various classification circuits by adjusting the relative concentrations of a few components. By connecting this circuit to molecular pathways that regulate apoptosis, the authors demonstrate the promise of this approach for programming cell fate outcomes. This could be extended to design complex neural circuits that augment the computational capacity of cells.

    perceptein: a combination of protein and perceptron.

    biorxiv:
    biorxiv.org/content/10.1101/20

    phys.org/news/2024-12-percepte

    #neuralNetworks #biochem #systemsbiology #proteins #cellbiology
    #bioengineering #technology

  43. new paper: "Making PBPK models more reproducible in practice" doi.org/10.1093/bib/bbae569

    "We make a proposal aiming to harmonize abbreviations used in PBPK models.
    To illustrate these recommendations, we present an original and reproducible PBPK model code in MATLAB, alongside an example of
    MATLAB code converted to Systems Biology Markup Language format using MOCCASIN."

    #SystemsBiology #bioinformatics #matlab #SBML #VHP4Safety