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We just published another flu mRNA vaccine study in JVirology Editors, where we show how the mRNA vaccine platform can improve seasonal influenza vaccines. 1/2 journals.asm.org/doi/10.1128/jv…

Very excited to share our work on HIV, out this week in nature. We sort and RNA-seq infected cells solely based on the detection of provirus DNA. Infected CD4 T cells have unique signatures that help to explain HIV persistence in vivo. nature.com/articles/s4158…

Our updated machine learning of adaptive immune receptor data for identification of immunological diseases or exposures now uses both BCR/IGH and TCR/TRB sequences to increase accuracy. Thanks to the whole team for this major effort. Maxim Zaslavsky, Anshul Kundaje (anshulkundaje@bluesky), rob tibshirani + all.

Our new paper by Corcoran et al., just out in Immunity, reveals a high variation in human T cell receptor germline genes. The alleles vary greatly in frequency between population groups and some are, surprisingly, inherited from our archaic relatives. authors.elsevier.com/sd/article/S10…

This is not good.

Extremely well written manuscript from Anshul Kundaje (anshulkundaje@bluesky) and Scott_Boyd_Lab_Stanford showing how a combination of 3 ML-models can identify a variety of disease states. Many of the features are even interpretable to help informed decisions and hypothesis generation | doi.org/10.1101/2022.0…

Ulrik Stervbo (He/Him) Scott_Boyd_Lab_Stanford + Maxim Maxim Zaslavsky (his brainchild & largely his words) + the rest of the team

Science at its best- data from 28 Covid vaccine randomized trials vs placebo. 286 915 people in vaccination groups and 233 236 in placebo groups. Protection from hospitalization 95.4%. Protection from death 85.8%. thelancet.com/journals/lanmi…

1/ So proud of PhDs Abigail Grootveld & Wunna Kyaw Garvan Institute of Medical Research UNSW Medicine & Health their first paper now out Cell. Amazing collab with Veera Panova & Oliver Bannard University of Oxford, David Hume UQ Medicine, Tanmay Mitra Helmholtz-Zentrum für Infektionsforschung –inaktiv & many more. cell.com/cell/fulltext/…

I am so proud of this effort driven by Oscar L Rodriguez . This has been a long time coming and I'm so delighted to finally see this paper published. So grateful for a truly amazing team and great collaborators Melissa Smith, Wayne A Marasco, & Scott_Boyd_Lab_Stanford rdcu.be/dhp4A

nature.com/articles/s4146…

Antibodies are the product of evolution on two timescales: over millions of years in vertebrate populations, and within weeks of infection or 💉 in populations of B cells. We ask how those timescales interact in our paper out in PLOS Pathogens 🧵 1/n t.ly/U84Un

These Captchas are getting out of hand #pathology #pathologists #captcha

To all budding compbio & ML folks interested in bio: Don't just only run behind the latest ML model hype train. The greatest long run impact will come by really assimilating prior bio/compbio literature with the goal of really understanding strategies for how to model biology. 1/

Today the department's newly appointed lab head Dr Prasanti Kotagiri presented her work from Scott_Boyd_Lab_Stanford Stanford University - a fascinating talk about antigenic breadth in SARS‑CoV‑2 and Crohn's disease. What a terrific start to her time here, we can't wait to see what comes next!

📢 Genome Research Update from MiLaboratories! 📢 We are happy to share that our latest research paper, "Ultrasensitive Allele Inference from Immune Repertoire Sequencing Data with MiXCR," is published in Genome Research. Our team, in collaboration with Scott_Boyd_Lab_Stanford and

How can we better predict which T-cell receptors (TCRs) will bind to specific epitopes, a crucial challenge in understanding immune responses and developing immunotherapies? Stanford University "Sequence-based TCR-Peptide Representations Using Cross-Epitope Contrastive Fine-tuning of

Will mostly be on Bluesky now. Same handle.

The human immunoglobulin heavy chain constant gene locus is enriched for large complex structural variants and coding polymorphisms ... biorxiv.org/content/10.110… #biorxiv_genomic

Today, in collaboration w/ colleagues at the Institute of Science and Technology Austria (ISTA), we report the first-ever method for using light microscopy to comprehensively map all the neurons & their connections in a block of mouse brain tissue. More →goo.gle/4maUNUs