Evotec’s Post

In biology, unpaired data is the norm as experiments are destructive. This lack of paired data limits our ability to build powerful multimodal models for drug discovery. To fuel a multimodal future in TechBio, we propose a simple algorithm for matching. In this work from Jason Hartford's team, we fit a classifier that outputs the conditional probabilities of specific perturbations across single-cell assays like phenomics and transcriptomics. This gives us a common space where matching algorithms like OT-based matching can be used to align modalities. These aligned samples can then be used as proxies for paired samples where existing multimodal representation learning techniques can be applied. See the experiments: https://lnkd.in/gmkTwHju Read the paper: https://lnkd.in/gv-fErT5

Quanhan (Johnny) Xi and I worked on a simple & very effective approach for pairing up unpaired multimodal data. If you have experiments that push the samples around, then you can leverage classical ideas from causal inference to define the “right” space to pair up samples. For an intuitive explanation, see the video below…

We’re introducing MolPhenix: a foundation model that predicts a map of the effect of any molecule-concentration pair on phenotypic cell assays and cell morphology. Cell images are powerful tools for unravelling complex biological systems. Unlike traditional assays with single readouts, they capture rich, high-dimensional information about cellular function. With MolPhenix, we use contrastive ML to develop a novel multi-modal approach enabling us to learn a rich representation of how a molecule affects the cell’s morphology. This was powered by the petabytes of phenomics data generated from Recursion's automated labs. We’ll be sharing more about MolPhenix at NeurIPS. In the meantime, explore how MolPhenix is harnessing the power of cell morphology to help push biological research forward through the blog. Blog: https://lnkd.in/eN8jGQPY Paper: https://lnkd.in/epDf7Md3

Excited to share that our paper has been accepted to #NeurIPS2024 🎉🎉 A huge thanks to my co-first author Philip Fradkin, as well as the project’s main supervisors, Dominique Beaini and Maciej Sypetkowski, for their invaluable guidance and support. I would also like to express gratitude to all other co-authors, including Ali Bashashati, Karush Suri, and Frederik Wenkel, for their contributions to this work. Check out the paper here: https://lnkd.in/gg-RD_a5 Check out our blog to learn more about MolPhenix and how it can help unlock a new area of application for ML in cell biology: https://lnkd.in/gGeM2vHR #NeurIPS2024 #NeurIPS

🚀 Set a New Standard for NGS with ABC Next-generation sequencing (NGS) has revolutionized our understanding of biology, yet core technology advancements have plateaued. Enter avidity base chemistry (ABC), a game-changing approach to sequencing that redefines every component of NGS. Discover the ABC Advantage: • PCR-Free Amplification: Eliminate traditional amplification barriers. • Low-Binding Surface Chemistry: Achieve superior contrast-to-noise ratio (CNR). • Rolling Circle Amplification (RCA): Minimize template error propagation. • Optimized Sequencing Steps: Reduce reagent consumption, enhancing efficiency and cost-effectiveness. Get ready to Shift Your Science! Explore our infographic to see how ABC is lowering costs and raising quality, transforming the future of NGS. Download the infographic: https://bit.ly/3yMhD0v #ElemBio #AVITI #AvidityBaseChemistry #Sequencing #Genomics #DNASequencing #NextGenerationSequencing #NGS

🔬 Exciting News in Molecular Biology! Introducing the QuantStudio™ 5 Real-Time PCR System tailored for Human Identification applications. 🧬 With its cutting-edge features, this equipment ensures precise and efficient analysis for forensic, research, and diagnostic purposes. Here's what sets it apart: 🔍 Non-interchangeable Block: Guaranteeing accuracy and preventing cross-contamination between samples, ensuring the integrity of your data. 🖥️ Touchscreen Display: User-friendly interface for seamless operation and intuitive navigation, enhancing productivity and ease of use. 💡 Veriflex Technology: Empowered with advanced filter combinations, allowing for flexible optimization of assays and delivering reliable results consistently. Unlock the potential of your research and forensic endeavors with the QuantStudio™ 5 Real-Time PCR System. Revolutionize your workflow and achieve unparalleled accuracy and efficiency! #QuantStudio5 #PCRSystem #HumanIdentification #ForensicScience #MolecularBiology #ResearchTools #Innovation #Biotechnology #LabLife #DNAAnalysis

📊 In collaboration with PrognomiQ Inc, our researchers did an in-depth comparison of various methodologies on Thermo Fisher Scientific's #OrbitrapAstralMassSpectrometer to unravel the tradeoffs of shorter gradients and robust synergy between the #OrbitrapAstral and the #ProteographXT workflow. 📈 The combined technologies lead the field in throughput and sensitivity, offering significant benefits for sample preparation, #liquidchromatography, and #MSmethods for unbiased and population-scale #proteomic studies. If you’re attending American Society For Mass Spectrometry (ASMS) #ASMS2024, come meet Seer Bioinformatics Scientist II, Lee Cantrell, PhD, at his poster presentation (WP 339) and learn firsthand the innovative strides we’re making in #massspectrometry! June 5 at 10:30am-11:30am and 12:30pm-2:30pm (PT). 🧬 Unlock the power of deep, unbiased proteomic studies with our #ProteographXTAssay for early #biomarkerdiscovery and #health status monitoring. Connect with us at Booth #118! #technology #scienceandtechnology #innovation #healthcare #pharma #plasmaproteome #biologicaldiscovery #proteomeanalysis

Please join us in listening to our bioinformatics expert, Matthew Campbell, PhD, speak at Neo4j’s LifeScience hybrid event on June 12 at 9:00 EDT | 13:00 BST | 14:00 CEST | 18:30 IST!    Knowledge graphs can uncover hidden relationships and patterns across massive datasets. At InterVenn, we use this technology to develop a deeper understanding of glycobiology and reveal novel insights into disease-related pathways.    Register here to listen in to the conversation: https://lnkd.in/dq9WxdAU #knowledgegraph #glycoproteomics #bioinformatics

🔍️ Discover the Future of Spatial Transcriptomics Analysis with Stereo-seq OMNI Technology! Are you ready to unlock the secrets of cutting-edge #genomic technology? 🗓️ Date: Friday, October 11th, 2024 ⏰ Time: 10:00 AM CEST / 4:00 PM HKT Join us as Zeyin Lu, our Field Application Scientist, presents an exclusive 45-minute session on mastering the art of spatial transcriptome analysis in formalin-fixed paraffin-embedded (FFPE) samples. What You'll Gain: 🔍 In-Depth Knowledge: Understand the revolutionary Stereo-seq technology and how it overcomes FFPE challenges. 📚 Real-World Applications: Explore groundbreaking research articles and medical case studies. 🛠️ Practical Insights: Get step-by-step guidance on sample preparation and experimental procedures. 📝 Register Here: https://lnkd.in/dntcufvB #Webinar #Biotechnology #Transcriptomics #StereoSeq #Innovation #FFPE

𝐉𝐨𝐢𝐧 𝐔𝐬 𝐓𝐨𝐦𝐨𝐫𝐫𝐨𝐰 𝐟𝐨𝐫 𝐭𝐡𝐞 𝐈𝐧𝐚𝐮𝐠𝐮𝐫𝐚𝐥 𝐒𝐞𝐬𝐬𝐢𝐨𝐧 𝐨𝐟 𝐭𝐡𝐞 𝐒𝐩𝐚𝐭𝐢𝐚𝐥 𝐎𝐦𝐢𝐜𝐬 𝐅𝐫𝐨𝐧𝐭𝐢𝐞𝐫𝐬 𝐒𝐞𝐫𝐢𝐞𝐬! 𝐓𝐨𝐩𝐢𝐜: Building a Complete Spatial Omics Toolbox for Deeper Biological Insights 𝐒𝐩𝐞𝐚𝐤𝐞𝐫: Niro Ramachandran, Chief Business Officer, Akoya Biosciences 𝑾𝒉𝒂𝒕 𝒀𝒐𝒖’𝒍𝒍 𝑮𝒂𝒊𝒏: • 𝐓𝐫𝐚𝐧𝐬𝐟𝐨𝐫𝐦𝐢𝐧𝐠 𝐓𝐢𝐬𝐬𝐮𝐞 𝐁𝐢𝐨𝐥𝐨𝐠𝐲: Discover how integrating spatial transcriptomics (RNA insights) and spatial proteomics (protein dynamics) provides a holistic understanding of complex biological systems. • 𝐁𝐞𝐲𝐨𝐧𝐝 𝐕𝐚𝐥𝐢𝐝𝐚𝐭𝐢𝐨𝐧: Understand why proteins are more than just validation tools—proteins drive biological function, interact directly with cellular machinery, and reveal critical post-transcriptional mechanisms missed by RNA alone. • 𝐑𝐍𝐀 + 𝐏𝐫𝐨𝐭𝐞𝐢𝐧 𝐒𝐲𝐧𝐞𝐫𝐠𝐲: Learn how RNA reveals transcriptional changes, while protein data uncovers functional outputs—both are essential for uncovering the complete picture of biology. • 𝐏𝐮𝐬𝐡𝐢𝐧𝐠 𝐭𝐡𝐞 𝐁𝐨𝐮𝐧𝐝𝐚𝐫𝐢𝐞𝐬: See how advanced technologies are empowering researchers to explore new frontiers in spatial omics. • 𝐁𝐫𝐞𝐚𝐤𝐢𝐧𝐠 𝐁𝐚𝐫𝐫𝐢𝐞𝐫𝐬: Explore how Akoya’s innovations are making cutting-edge spatial omics tools accessible to scientists worldwide. 𝐃𝐨𝐧’𝐭 𝐌𝐢𝐬𝐬 𝐓𝐡𝐢𝐬 𝐒𝐞𝐬𝐬𝐢𝐨𝐧! Date: Tuesday, 26th November 2024 Time: 9 AM PST | 12 PM EST | 5 PM GMT 𝐑𝐞𝐠𝐢𝐬𝐭𝐞𝐫 𝐇𝐞𝐫𝐞: https://lnkd.in/e-Y-Bt9a Be part of the movement shaping the future of spatial omics research!