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Halima Schede joins the lab for a Masters project. She is enrolled in the Bioengineering program and has studied in biology and mathematics at McGill. With her passion for machine learning and neural networks and her knowledge of anatomy and genetics she will turn a bunch of omics data in useful insights of the molecular anatomy of the brain. Welcome Halima!

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Anurag Ranjak joins the lab for a Masters project. Anurag is a Chemical Engineer with industry experience in software engineering. He will adventure in spatial transcriptpomics and image reconstruction.He recently “converted” to biology and enrolled in EPFL Masters in Life Sciences. Welcome Anurag!

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Our work on RNA velocity, the time derivative of gene expression, is now out in Nature. A lot of interesting new evidence and analysis added to the initial bioarxiv preprint. We put great attention to feature possibilities and the limits of the estimation approach. velocyto software is mature and ready to use. Enjoy!

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Over the last few days I have been at the École Polytechnique Fédérale de Lausanne (EPFL) Lausane, Switzerland. The reason of this little trip is that EPFL recently opened a special position at their School of Life Sciences….

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Congratulations to Lars and Simone! This week Simone Codelluppi and Lars Borm, in our lab have been releasing to the world their creation: osmFISH, a fantastic technique they have been optimizing to perfection! I really reccomand to read the preprint here

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Single-cell RNA-seq measurements provide a powerful approach for studying complex biological tissues. Some of the more interesting contexts involve dynamic processes, such as development or disease progression. However single-cell measurements only capture a snapshot of a transcriptional state at a single point in time.

Several approaches have been developed to infer dynamic processes, such as branching lineages, from this scRNA-seq. Usually those methods require …

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