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Reposted by Ben Nicolet

bioRxiv Immunology @biorxiv-immuno.bsky.social · 14/09/2026

PAIR-Scan: Single-step identification of highly potent TCR-neoantigen pairs through library-on-library screening www.biorxiv.org/content/10.64898/20…

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Ben Nicolet @bnicolet.bsky.social · 01/08/2025

Can you boost the protein expression in specific cell types? That is what we asked in our study published a week ago in @scienceadvances We used machine learning (AI) to learn the code for protein expression in immune cells. www.science.org/doi/10.1126/...

science.org

Learning the sequence code of protein expression in human immune cells

SONAR informs the design of cell type–specific protein expression in human cells.

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Reposted by Ben Nicolet

Monika Wolkers @monikawolkers.bsky.social · 23/07/2025

it is finally out! 👇 our #ML pipeline SONAR, which can predict the protein abundance in #immune cells. Using sequence features present in the #RNA. With @bnicolet.bsky.social Supported by the @erc.europa.eu and@oncodeinstitute.bsky.social www.science.org/doi/epdf/10....

science.org

Learning the sequence code of protein expression in human immune cells

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Reposted by Ben Nicolet

Schumacher Lab @schumacher-lab.bsky.social · 02/05/2025

It's not the models, it's the data! We show that a substantial proportion of a widely used TCR-pMHC database does not functionally validate, causing underestimation of performance of TCR-pMHC prediction models. www.biorxiv.org/content/10.1...

biorxiv.org

A functionally validated TCR-pMHC database for TCR specificity model development

Accurate prediction of TCR specificity forms a holy grail in immunology and large language models and computational structure predictions provide a path to achieve this. Importantly, current TCR-pMHC ...

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Ben Nicolet @bnicolet.bsky.social · 29/04/2025

Getting inspired at the EMBL sustainability event!

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Ben Nicolet @bnicolet.bsky.social · 05/01/2025

Super grateful and happy to be part of MATCHMAKERS team of @cancergrand.bsky.social : bit.ly/4iN1dY9 (And thanks to CGC for the opportunity to talk about my work!)

bit.ly

Tackling one of immunology’s greatest questions

Future Leaders Spotlight: Meet MATCHMAKERS with Benoit Nicolet.

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Ben Nicolet @bnicolet.bsky.social · 03/01/2025

Super grateful and happy to be part of MATCHMAKERS team of @cancergrand.bsky.social : bit.ly/4iN1dY9 (And thanks to CGC for the oppressed to talk about my work!)

bit.ly

Tackling one of immunology’s greatest questions

Future Leaders Spotlight: Meet MATCHMAKERS with Benoit Nicolet.

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Ben Nicolet @bnicolet.bsky.social · 07/12/2024

(Repost from EMBO on x) Rethinking #sustainability in #science: read about three projects on consumption and waste of shortlisted candidates for the EMBO Lab Sustainability Award embo.org/people/rethink… @CanigovaNikola @bnicolet.bsky.social @SELS_Network

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Ben Nicolet @bnicolet.bsky.social · 22/11/2024

Looking forward to attend this great meeting!

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Reposted by Ben Nicolet

Evelina Tutucci @anilevetu.bsky.social · 12/11/2024

New preprint 📣📣 Together with Monika Wolker's lab @sanquin Amsterdam, we optimized a smFISH protocol for T cells. We measured cytokines IFNG/TNF expression and localization during T cell activation and optimized an imaging pipeline for quantification. www.biorxiv.org/content/10.1...

biorxiv.org

Single molecule imaging of transcription dynamics, RNA localization and fate in T cells

T cells are critical effector cells against infections and malignancies. To achieve this, they produce pro-inflammatory cytokines, including IFN-gamma and TNF. Cytokine production is a tightly regulat...

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Reposted by Ben Nicolet

Rod Rahimi @rodrahimi.bsky.social · 15/11/2024

Wonderful to see the #immunology community growing here. The first starter pack is full (they cap at 150), so I created a second one. Let me know if you'd like to be added go.bsky.app/PY5tCas go.bsky.app/FmERUoD

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