Quantum Zeitgeist’s Post

𝐓𝐡𝐞 𝐏𝐫𝐞𝐝𝐢𝐜𝐭𝐢𝐯𝐞 𝐌𝐨𝐝𝐞𝐥𝐢𝐧𝐠 𝐑𝐞𝐯𝐨𝐥𝐮𝐭𝐢𝐨𝐧!🧬⚙️ A recent lecture on Model systems by one of our professors got me thinking about how much research tools have advanced. In the rapidly evolving world of biotechnology, 𝗽𝗿𝗲𝗱𝗶𝗰𝘁𝗶𝘃𝗲 𝗺𝗼𝗱𝗲𝗹𝗶𝗻𝗴 is transforming the way we conduct research and development. But what exactly does this mean, and why should you care? Imagine this: Instead of lengthy, costly lab experiments, scientists can now use advanced algorithms to simulate biological processes and predict outcomes before even setting foot in the lab. Welcome to the world of 𝐢𝐧 𝐬𝐢𝐥𝐢𝐜𝐨 𝐚𝐧𝐚𝐥𝐲𝐬𝐢𝐬!📈📊 Predictive modeling leverages complex statistical techniques and ML to analyze vast datasets. By utilizing existing data on biological systems, researchers can create models that forecast how different variables will interact. 𝐃𝐫𝐮𝐠 𝐃𝐢𝐬𝐜𝐨𝐯𝐞𝐫𝐲: Predictive models can identify potential drug candidates by simulating their interactions with target proteins, significantly speeding up the process. For instance, a study published in Nature Biotechnology demonstrated that machine learning algorithms could predict the efficacy of drug compounds with remarkable accuracy (https://lnkd.in/dxEnnw9E) 𝐆𝐞𝐧𝐞𝐭𝐢𝐜 𝐑𝐞𝐬𝐞𝐚𝐫𝐜𝐡: In silico analysis allows scientists to predict the behavior of genes and their interactions within cellular environments. This has enormous implications for understanding diseases and developing gene therapies. A paper in Bioinformatics highlighted how predictive models successfully identified novel genetic variants associated with specific conditions. (Larrea-Sebal, Asier et al. “Predictive Modeling and Structure Analysis of Genetic Variants in Familial Hypercholesterolemia: Implications for Diagnosis and Protein Interaction Studies.” Current atherosclerosis reports vol. 25,11 (2023): 839-859. doi:10.1007/s11883-023-01154-7) 𝐄𝐧𝐯𝐢𝐫𝐨𝐧𝐦𝐞𝐧𝐭𝐚𝐥 𝐈𝐦𝐩𝐚𝐜𝐭 𝐀𝐬𝐬𝐞𝐬𝐬𝐦𝐞𝐧𝐭𝐬: Predictive modeling can assess the impact of biotechnological interventions on ecosystems, helping to ensure that innovations are sustainable and eco-friendly.🍃🌍 By reducing the time and cost associated with traditional methods, we can bring new therapies and solutions to market faster than ever. #Predictivemodelling #Bioinformatics #Modelsystems #Biotechnology #Drugdiscovery #AI #Machinelearning

Exciting news! AlphaFold 3 by Google DeepMind and Isomorphic Labs is revolutionizing molecular biology and drug discovery with groundbreaking accuracy and accessibility. 🔬 Predicts structures and interactions of proteins, DNA, RNA, and ligands 💊 Enhances drug design and discovery processes 🌐 Free and easy-to-use AlphaFold Server for researchers worldwide 🤝 Collaborations with pharmaceutical companies for real-world applications #AI #Biotech #Innovation 🧬 Predicts molecular structures with 50% more accuracy ⏩ Accelerates research in drug discovery and disease understanding 🔍 Provides detailed insights into biological processes 🌍 Offers free access to the AlphaFold Server for transformative research 🎯 Models complex interactions, including protein-ligand and protein-antibody binding 🧪 Assists in developing new treatments by predicting how molecules interact in the human body 🧬 Supports research in neglected diseases and food security through global partnerships 📚 Expands education with a free online course in collaboration with EMBL-EBI Access it now for groundbreaking scientific insights!

The Matthias Mann Lab is pioneering new frontiers in spatial medicine. Our latest research from Thierry Nordmann and team, featured in Nature Biotechnology, showcases how our Deep Visual Proteomics platform is delivering on the promise of spatial proteomics. By applying DVP, we identified a new therapeutic strategy for a severe skin disease, pinpointing the JAK-STAT pathway as a key druggable target. This discovery paves the way for a future clinical trial repurposing JAK inhibitors, offering a potential new treatment avenue. This work validates DVP as a powerful platform for accelerating drug repurposing across various diseases. Its ability to provide deep, spatially-resolved proteomic insights is crucial for translating research into clinical applications. We're proud to contribute to the advancement of spatial medicine, demonstrating how technologies like DVP are driving therapeutic innovation. Thanks to Nature Biotechnology for highlighting this exciting progress. Read more: https://lnkd.in/ePGmMrx4 Max Planck Institute of Biochemistry Novo Nordisk Foundation Center for Protein Research, University of Copenhagen Novo Nordisk Foundation #SpatialMedicine #SpatialProteomics #DVP #DeepVisualProteomics #DrugRepurposing #PrecisionMedicine #DrugDiscovery #MatthiasMannLab #NatureBiotechnology

In a newly published OA paper, Merck Healthcare- and Technische Universität Darmstadt-based authors provide a thorough review of allosteric antibody development. From the abstract: A novel pharmacology is emerging that enables precise regulation of protein activity through antibody binding to allosteric sites/epitopes, paving the way for a deeper understanding of allosteric regulations of target proteins. Successful discoveries of allosteric antibodies against previously antibody-undruggable targets, such as G protein-coupled receptors (GPCRs) or ligand-gated ion channels, are shedding light on potential new druggability avenues with antibodies. Allosteric antibodies are also of interest for small molecules discovery, opening up a new era by integrating the two technologies. Recent efforts in the fields of computational biology and artificial intelligence (AI) hold promise for integrating allosteric site detection with de novo antibody design, paving the way for efficient allosteric antibody discovery. #mabs https://lnkd.in/dSXjpniU

Glad that at last practice proves the theory about molecular intelligence - "Molecular Intelligence Results in Chemical Bonds, Genetical or Cell Intelligence Results in Protein Structures and Human Intelligence Results in Human Language." A Unified Theory - Universal Language https://lnkd.in/dtXc_N2X

We’ve been developing AlphaFold 3 to advance how we do drug design at Isomorphic Labs. This model allows us to a) do rational structure based drug design in-silico, and b) understand more about the biological context of targets https://lnkd.in/g7df5p4Q With AF3, our scientists are able to create and test hypotheses at the atomic level, and get predicted structures back within seconds, allowing our scientists to design small molecules with AlphaFold 3 predictions in a tight loop. Crucially for drug design, we find that AF3’s predictions can generalise to completely novel targets and mechanisms, such as this novel allosteric binding mode for a novel kinase inhibitor. A richer understanding of a novel target can be achieved by looking at the structure of targets in their full biological context, in complex with other protein binding partners, DNA, RNA, or ligand cofactors. We believe that this broader understanding of the biological context within which drug targets operate will translate into more effective drugs in the clinic. At Isomorphic Labs we’re combining AlphaFold 3 with our other proprietary AI models that help us understand more about the properties, function, and dynamics of molecular systems. We’ll continue to be heads down in research, tackling the next frontier of fundamental modelling questions in chemistry and biology from first principles with AI, to change the way we design the next generation of therapeutics, and unlock new biology. Read more in our blog post https://lnkd.in/g7df5p4Q

Publication alert! Our Latest Research Article is Published! I am thrilled to share that our latest research article, titled "From petals to healing: consolidated network pharmacology and molecular docking investigations of the mechanisms underpinning Rhododendron arboreum flower’s anti-NAFLD effects" has been published in Frontiers in Pharmacology having Impact factor: 5.6; CiteScore: 6.3. This work represents a significant milestone in our ongoing efforts to advance the field of bioinformatics, in silico drug modelling and drug discovery by computational methods. The paper comprehensively elucidated toxicity data, potential targets of bioactives and molecular mechanisms of Rhododendron arboreum Sm. (Burans) against NAFLD, providing a promising novel strategy for future research on NAFLD treatment. Special recognition goes to Nitish whose dedication, hard work, and insightful contributions were instrumental in publishing this research paper. His relentless pursuit of excellence and innovative approach truly set the standard for this publication. His collective efforts have made this publication a reality. We are excited to see the impact our research will have and look forward to continuing our journey of drug discovery and innovation. 🔗 To read more about our findings, check out the article here: https://lnkd.in/ge7p-D8v #Research #Innovation #Publication #Dedication #Gratitude #Drug discovery

𝗣𝗵𝗮𝗴𝗲 𝗗𝗶𝘀𝗽𝗹𝗮𝘆 𝗨𝗻𝗹𝗲𝗮𝘀𝗵𝗲𝗱: 𝗔𝗜 𝗮𝗻𝗱 𝗡𝗚𝗦 𝗧𝗿𝗮𝗻𝘀𝗳𝗼𝗿𝗺𝗶𝗻𝗴 𝗗𝗿𝘂𝗴 𝗗𝗶𝘀𝗰𝗼𝘃𝗲𝗿𝘆 𝗮𝗻𝗱 𝗧𝗵𝗲𝗿𝗮𝗽𝗲𝘂𝘁𝗶𝗰𝘀 Phage display is a powerful technique that displays peptides or antibodies on the surface of bacteriophages, enabling the screening of large libraries for molecules with desired properties. The 2018 Nobel Prize in Chemistry recognized George P. Smith and Sir Gregory P. Winter for their pioneering work on this technology. 𝗔𝗽𝗽𝗹𝗶𝗰𝗮𝘁𝗶𝗼𝗻𝘀 𝗮𝗻𝗱 𝗔𝗱𝘃𝗮𝗻𝗰𝗲𝘀 Phage display has been widely used in epitope mapping, drug target identification, and therapeutic development. It is increasingly integrated with next-generation sequencing (NGS) and artificial intelligence (AI) to enhance peptide and antibody discovery. 𝗡𝗼𝘁𝗮𝗯𝗹𝗲 𝗥𝗲𝘀𝗲𝗮𝗿𝗰𝗵 Studies using NGS platforms, such as Roche 454 and Ion Torrent, have led to the identification of thousands of peptide targets. Researchers have also applied AI to predict peptide binders, such as PD-L1, improving phage display accuracy and efficiency. 𝗠𝗲𝘁𝗵𝗼𝗱𝗼𝗹𝗼𝗴𝗶𝗰𝗮𝗹 𝗜𝗺𝗽𝗿𝗼𝘃𝗲𝗺𝗲𝗻𝘁𝘀 Recent reviews and studies focus on enhancing phage display techniques, such as bioconjugation, non-canonical amino acids, and ELISA signal optimization. Additionally, phage display-derived antibodies have shown efficacy against various RNA viruses, including SARS-CoV-2. 𝗖𝗼𝗻𝗰𝗹𝘂𝘀𝗶𝗼𝗻 Phage display continues to evolve with NGS and AI integration, contributing significantly to biomarker discovery, vaccine design, and drug development. Summarized by Samuel Ndegwa. 𝗥𝗲𝗳𝗲𝗿𝗲𝗻𝗰𝗲 Huang, J., Yoichi Takakusagi, & Ru, B. (2022). Editorial: Phage display: Technique and applications. Frontiers in Microbiology, 13. https://lnkd.in/dbdST6n4 #PhageResearch #PhageTherapy #OneHealth #PhageDisplay #AntimicrobialResistance

🔬 𝐔𝐧𝐝𝐞𝐫𝐬𝐭𝐚𝐧𝐝𝐢𝐧𝐠 𝐭𝐡𝐞 𝐃𝐢𝐯𝐞𝐫𝐬𝐢𝐭𝐲 𝐨𝐟 𝐀𝐧𝐭𝐢𝐛𝐨𝐝𝐲 𝐄𝐧𝐠𝐢𝐧𝐞𝐞𝐫𝐢𝐧𝐠 🔬 This comprehensive diagram showcases the fascinating world of antibody engineering, highlighting various antibody types and their applications in modern medicine. 𝐇𝐮𝐦𝐚𝐧 𝐈𝐬𝐨𝐭𝐲𝐩𝐞𝐬: The image outlines different human antibody isotypes such as IgG, IgA, IgM, IgE, and IgD, each playing vital roles in our immune system. 𝐂𝐡𝐢𝐦𝐞𝐫𝐢𝐜 & 𝐇𝐮𝐦𝐚𝐧𝐢𝐳𝐞𝐝 𝐀𝐧𝐭𝐢𝐛𝐨𝐝𝐢𝐞𝐬:These are engineered to combine mouse and human components, enhancing their efficacy and reducing immune reactions in therapeutic applications. 📚 𝐆𝐞𝐭 𝐘𝐨𝐮𝐫 𝐒𝐚𝐦𝐩𝐥𝐞 𝐂𝐨𝐩𝐲 𝐨𝐟 𝐑𝐞𝐩𝐨𝐫𝐭: https://lnkd.in/gx9mtmEt 𝐀𝐧𝐭𝐢𝐛𝐨𝐝𝐲 𝐅𝐫𝐚𝐠𝐦𝐞𝐧𝐭𝐬: These smaller fragments, such as Fab and scFv, offer targeted therapeutic potential with reduced size and complexity. 𝐀𝐧𝐭𝐢𝐛𝐨𝐝𝐲-𝐃𝐫𝐮𝐠 𝐂𝐨𝐧𝐣𝐮𝐠𝐚𝐭𝐞𝐬 (𝐀𝐃𝐂𝐬): Innovative combinations of antibodies with drugs, cytokines, or nanoparticles, designed to deliver targeted therapy with increased precision. 𝐋𝐞𝐚𝐝𝐢𝐧𝐠 𝐩𝐥𝐚𝐲𝐞𝐫𝐬 𝐨𝐟 𝐀𝐧𝐭𝐢𝐛𝐨𝐝𝐲 𝐄𝐧𝐠𝐢𝐧𝐞𝐞𝐫𝐢𝐧𝐠: Ablexis, LLC Antibody Solutions ChemPartner Creative Biolabs GenScript Genmab HARBOUR BIOMED IPA (ImmunoPrecise Antibodies) MAbSilico This visual serves as a reminder of the incredible advancements in antibody research, driving the development of targeted therapies for various diseases. #immunology #science #microbiology #biology #biotechnology #biochemistry #molecularbiology #genetics #research #biotech #cellbiology #medicine #microbiologist