Deepcell’s Post

The latest issue of The CRISPR Journal dives deep into the thrilling convergence of AI and synthetic biology, propelling genome editing into a new era. The thought-provoking editorial by Rodolphe Barrangou underscores the remarkable progress in CRISPR therapies, painting a vivid picture of the transformative power of this technology. The featured research articles offer a glimpse into the cutting-edge applications of CRISPR, from the discovery of novel Cas9 orthologs to the use of prime editing for therapeutic breakthroughs. The insightful discussions on the ethical dimensions of human genome editing add another layer of significance to this issue, highlighting the importance of responsible innovation in this rapidly evolving field. The fusion of AI, synthetic biology, and CRISPR heralds a future brimming with possibilities, poised to reshape medicine and beyond. #CRISPR #GenomeEditing #AI #SyntheticBiology #Biotechnology #FutureOfMedicine

Just as a radio allows you to listen to an individual frequency, a novel protein circuit technology developed by the University of Wisconsin-Madison allows researchers to tune into the specific “radio station” of each cell through genetically encoded proteins from a bacterial system called MinDE. The proteins generate an oscillating fluorescent signal that transmits information about cell shape, state, and identity that researchers can decode using digital signal processing tools originally designed for telecommunications. The approach allows a look at the dynamics of a single cell in the presence of many other cells. Find this cool science video and many more through the link in the comments.  #BasicResearch #MinDE #CelluarFunction 

In today’s rapidly evolving landscape of #CellTherapy, #GeneTherapy, and #VaccineDevelopment, one challenge continues to limit breakthrough innovations: the inability to access the full range of complex (natural) sequences needed for critical applications. At Ansa Biotechnologies, we understand that the future of therapeutic development depends on the precision and reliability of your tools. That’s why we’ve developed the most powerful DNA synthesis platform, designed specifically to overcome these barriers. Our novel enzymatic DNA synthesis technology enables the creation of highly complex sequences, ensuring that no project—no matter how challenging—needs to be compromised by the limitations of traditional approaches. Whether you’re developing cutting-edge treatments or pioneering new therapies, we believe that getting the right sequence is more than a technical detail—it’s mission-critical. And at Ansa, we’re proud to be the partner that empowers you to take your research to the next level. The future of medicine demands innovation, and it starts with the DNA you need. Don’t let legacy synthesis hold you back. Let’s make those sequences a reality. #DNAsynthesis #BiotechInnovation #TherapeuticDevelopment

Whether it is GC-rich, repeats, homopolymers, secondary structures, or other complex sequence, you can finally expand your research and commercialization that starts with DNA.

Fun discussion with Vivienne Raper at Genetic Engineering & Biotechnology News. We talked about how biomanufacturing is increasingly incorporating AI and SynBio to engineer biology in a more efficient, and more predictable fashion. One example being our own Leap-In transposase, another being our developability engineering platform. Read the article here https://lnkd.in/gf_m65uU

“LIANA+ provides an all-in-one framework for cell–cell communication inference" introduces LIANA+, a comprehensive tool for decoding inter- and intracellular communication from single-cell and spatially resolved transcriptomics data. It integrates diverse methodologies to analyze molecular mediators across multi-omics datasets, enhancing the ability to study complex signaling events. LIANA+ offers a scalable and flexible approach, incorporating both hypothesis-driven and unsupervised analyses, making it a powerful framework for understanding cellular interactions in various biological contexts. For more details, access the full article: https://lnkd.in/erSkXn9J

🚀 Exciting News from the HIDSS4Health Graduate School! The multi-objective optimization framework, DOT, for transferring features across single-cell and different resolutions of spatial omics, led by our PI Julio Saez Rodriguez, is now published in Nature Communications! 🎉 You can access the paper and their work as a free and open-source R implementation here: https://lnkd.in/e78PqGpr https://lnkd.in/e4_reYKV 🔬 The manuscript provides extensive benchmarking and analysis of both deconvolution and localization approaches. DOT consistently achieves top performance across multiple metrics and tasks. 🆕 Since the preprint, new applications have been added, including defining the task of spatial-to-spatial transfer of features beyond cell types - such as anatomical or pathological annotations from adjacent slices or across samples. 💡 DOT also enables the transfer of gene expression from scRNA to high-resolution, lower coverage data (Xenium), complementing available markers within the limits of dependent gene expression. Its performance was validated through ablation studies and using Visium as a low-res proxy. ⚡ The implementation of the multi-objective optimal transport problem (Frank-Wolfe algorithm) makes DOT one of the fastest approaches, scaling linearly with the number of spatial locations and handling the ever-increasing size of available data. #SpatialOmics #SingleCell #MachineLearning #OpenSource #Bioinformatics #NatureCommunications

A recent single-cell sequencing preprint piqued my interest—it outlines a novel method that combines cell fixation, scalable emulsification, and barcoding during PCR amplification instead of the reverse transcription step. This approach could significantly reduce costs, improve sample flexibility, and minimize cross-contamination risks by processing samples in separate tubes. I think this could be a powerful development in making single-cell analysis more accessible and scalable for patient samples, potentially transforming the future of genomics research. Check out the pre-print here: https://lnkd.in/eNzZmevm #SingleCellSequencing #Genomics #PCR #BiotechInnovation

CellAgent ushers in the 'Agent for Science' era! 🚀 Researchers from Northwestern Polytechnical University introduced a ground-breaking tool, #CellAgent, that may change how single-cell RNA sequencing (scRNA-seq) data is analyzed. 🎯 CellAgent is an LLM-driven multi-agent framework for #Automated #scRNAseq data analysis. It delivers high-quality results with no human intervention, transforming cellular heterogeneity research. Quick Read: https://lnkd.in/gHvKjycw #bioinformatics #scRNAseq #dataanalysis #ngs #ai #llm #singlecell #automation #sciencenews

Digital DNA – the future or the present? 🧬🤔 The 25th of April is World DNA Day, the occasion we celebrate the discovery of DNA's structure, which revolutionised genetics 🧬 In 1953, the discovery of the double helix changed our grasp of life's code. Today, digital tools enable modelling, optimising genome engineering, and conducting evolutionary experiments via mobile systems. But is digitising DNA possible? Absolutely! DNA can be sequenced into digital data, stored in databases, and utilised for genetic research, medical diagnostics, and forensic analysis. Together with our client ENPICOM, who's advancing biotechnological research for personalised immunotherapies and vaccines by decoding the immune system, we developed a cloud platform enabling scientists to manage, analyse, and visualise immune repertoire sequencing data. Here's how we approached the project ➡️ https://bit.ly/3YtcjIb     Do you know any #digitalgenetics applications? #WorldDNADay #genetics #biotechnology #digitalmedicine