Miquel Anglada-Girotto
Love predicting genomic things. Postdoc @crgenomica.bsky.social at the Probabilistic Machine Learning and Genomics group.
Creator of @splicingnews.bsky.social
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- Reposted by Miquel Anglada-GirottoOur annual PhD call is closing at the end of this week on 30 November. If you're interested in carrying out world-class scientific research in Barcelona, you still have a few days left to submit your application! www.crg.eu/en/content/t...
- Very nice!
- Wouldn’t it be cool to leverage the throughput of single-cell data to study splicing regulation even when we lack exon resolution? 😀 Here’s the peer-reviewed version of our paper on how we can measure changes in splicing factor activity in virtually any single-cell dataset: doi.org/10.1093/nar/...
- Couldn't think of a better place to make models! Come join us!
- Es Castell
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- Reposted by Miquel Anglada-GirottoI am very happy to have posted my first bioRxiv preprint. A long time in the making - and still adding a few final touches to it - but we're excited to finally have it out there in the wild: www.biorxiv.org/content/10.1... Read below for a few highlights...
- Reposted by Miquel Anglada-GirottoLast week I released bpnet-lite v0.5.0. BPNet/ChromBPNet are powerful models for understanding regulatory genomics from @anshulkundaje.bsky.social's group, and now it's way easier to go from raw data to trained models and analysis + results in PyTorch Try it out with `pip install bpnet-lite`
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- Today I learned artists study primitive art to understand how art was made out of the art business context. This made me wonder how science would be made nowadays out of the journal publishing context. Would we try to answer different questions?
- Leveraging evolution to make fitness estimation scale with model size again! Great experiencing the making of this one behind the scenes 🙌
- New preprint in collaboration with @paulinanunezv.bsky.social supervised by @jonnyfrazer.bsky.social and Mafalda Dias – we propose a simple approach to improving zero-shot variant effect prediction in pre-existing protein and genome language models: 🧶 1/n www.biorxiv.org/content/10.1...
- Reposted by Miquel Anglada-Girottopolars-bio - fast, scalable and out-of-core operations on large genomic interval datasets www.biorxiv.org/content/10.1... 🧬🖥️🧪 github.com/biodatageeks...
- How can we leverage Perturb-seq screens to study splicing factor (SF) regulation systematically? Here’s our approach: bsky.app/profile/bior...
- Hi all! Inspired by how easy ColabFold ( @sokrypton.org ) made prot structure prediction for me, I have started ColabRNA to facilitate making predictions with RNA-based models! Currently, the following models are available: - SpliceAI - Pangolin - SpliceTransformer - Borzoi Happy to get feedback!
- Reposted by Miquel Anglada-GirottoThe Genomic Code: the genome instantiates a generative model of the organism www.cell.com/trends/genet... - really delighted to see this in print in @cp-trendsgenetics.bsky.social! 😊
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- Reposted by Miquel Anglada-GirottoCool paper using LLM to discover a protein sequence code for subcellular localization 👏 www.science.org/doi/10.1126/...
- Reposted by Miquel Anglada-GirottoI wanted to write briefly about a very pleasant experience we recently had coordinating and collaborating closely on competing publications with 2 other teams. 1/
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- Nice benchmark!
- Ciutadella, 12/2024
- Reposted by Miquel Anglada-Girotto
- My new favorite episode!
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- Low tie in Fanø
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- Using dnn training dynamics for single cell annotation
- Reposted by Miquel Anglada-GirottoMajor milestone: Tabula Sapiens 2.0 maps tissue composition & TF expression in 175 cell types, identifying 745 ubiquitous & 890 cell type-specific TFs (many still uncharacterized -> #Codebook) w/ roles in tissue homeostasis, stress response & metabolism. #SingleCell www.biorxiv.org/content/10.1...
