Yuriy Baglaenko

Assistant Professor, Division of Human Genetics. Immunologist, molecular biologist, CRISPR & scRNAseq expert.

[Yuriy Baglaenko @YuriyBaglaenko]

I recently had the opportunity to present our work at the Variant Effect Seminar Series. See a recording below if you're interesting in learning more about our recent published paper and on-going projects.

https://t.co/bv8UHGkGuO

[Yuriy Baglaenko @YuriyBaglaenko]

We recently pushed an updated to our protospacer Base editing design tool (https://t.co/k59XjPOvmp) to allow for genome modification near a variant regardless or transition. If the region is important, so are the nucleotides around it. Hope this helps somebody out.

[Yuriy Baglaenko @YuriyBaglaenko]

At PRES2025 in Helsinki to talk about multiomic single cell sequencing in juvenile arthritis. HMU if you'd like to chat about anything at all. #PRES2025

[Yuriy Baglaenko @YuriyBaglaenko]

Woohooo!

[Dylan Kotliar @DKotliar]

Paper from me @michecurtis @soumya_boston and co out now in @naturemethods! We now call the tool starCAT instead of *CAT but the strategy is the same: Build a catalog of ~50 interpretable T cell gene expression programs + use them to interpret new data https://t.co/qCJFcGg88B

[Yuriy Baglaenko @YuriyBaglaenko]

Woohoo! Good job Dylan. Can confirm that TCAT works well on other datasets besides those featured in the paper.

[Nature Methods @naturemethods]

Introducing TCAT, a pipeline to simultaneously capture gene expression programs related to T cell subsets and activation states.

https://t.co/rGWbAJrFQh

[Yuriy Baglaenko @YuriyBaglaenko]

@Nature Author here to answer any questions one might have about this work. The full protocols is on https://t.co/q16OFr0xnK and we have deposited codebooks to github. DMs open

[Yuriy Baglaenko @YuriyBaglaenko]

@CincyResearch @Nature Happy to answer questions if anyone is curious to learn more.

[Yuriy Baglaenko @YuriyBaglaenko]

Many many thanks to @soumya_boston, @ZepengMu, and every other co-author on this project. We are continuing to scale and implement these strategies in my lab, so reach out if that interests you.

[Yuriy Baglaenko @YuriyBaglaenko]

I am very excited to share our publication, out now in Nature, detailing our developed CRAFTseq methodology for capturing and analysing single cell genomic DNA amplicons alongside the transcriptome and cell surface protein expression.
https://t.co/rQRubsK58P

[Yuriy Baglaenko @YuriyBaglaenko]

Happy to answer any and all questions about this work. We'd love to see more people try it.
Full protocol: https://t.co/Dla8lUgFNI
Full analysis: https://t.co/wgDFP8pCRI

[Yuriy Baglaenko @YuriyBaglaenko]

My lab thinks a lot about CRISPR editing variants of interest in primary human cells. We made a little tool to help. Hopefully, someone else can get some use out of it. https://t.co/k59XjPP3bX
https://t.co/7RWpq3V1UI

[Dylan Kotliar @DKotliar]

@michecurtis and I are thrilled to share our preprint "Reproducible single cell annotation of programs underlying T-cell subsets, activation states, and functions" from the @soumya_boston lab @BrighamResearch and @broadinstitute!

https://t.co/OexYxSnc3D

1/12

[Michael Fischbach @mfgrp]

How to pick a problem. Today in @CellCellPress. 1/53
https://t.co/Id4YaXWuup

[Yuriy Baglaenko @YuriyBaglaenko]

I need to remember this tweet

[Britt Adamson @bsadamson]

Better yet, please try out our PE7 editor for yourself! One of our plasmids is already available at @Addgene https://t.co/WK8eEh7BQE, with more to come.

[Britt Adamson @bsadamson]

Better yet, please try out our PE7 editor for yourself! One of our plasmids is already available at @Addgene https://t.co/WK8eEh7BQE, with more to come.

[Yuriy Baglaenko @YuriyBaglaenko]

@soumya_boston @broadinstitute @MassGenBrigham Too many people to thank to count. I welcome any direct questions. If you want to discuss CRISPR editing in primary immune cells, shoot me a DM.

[Yuriy Baglaenko @YuriyBaglaenko]

CRISPR editing is hard. Editing in primary human cells is even harder. Editing non-coding variants in human cells is downright impossible. I am happy to share our work aimed at addressing this problem with @soumya_boston @broadinstitute @MassGenBrigham https://t.co/zsH9UYd4cj

[Yuriy Baglaenko @YuriyBaglaenko]

@soumya_boston @broadinstitute @MassGenBrigham The protocol is live. No specialized equipment required. Only the ability to sort single cells. Go check it out and send us your questions. https://t.co/GFUZBMyLgG