Overjoyed to share our new work exploring the antigen specificity of CSF-expanded CD8+ T cells in #multiplesclerosis #EBV in @natimmunol.nature.com #immunology 🧪🧵1/ www.nature.com/articles/s41...

Antigen specificity of clonally enriched CD8+ T cells in multiple sclerosis - Nature Immunology

Sabatino and colleagues examine expanded CD8+ T cell clonotypes from a small cohort of multiple sclerosis patients. They identified several cognate peptide epitopes that derive from Epstein–Barr virus...

nature.com

Are you a fan of #fibroblasts? Do you think about the lung ECM in your quiet moments? Then join David Boyd & a panel discussion as he presents “Integrated Longitudinal Transcriptomic & Proteomic Analysis of the Murine Lung Response to Influenza A Virus" t.co/2IdbWJVNDQ

Great culture can save lives. Literally. Amazing letter in today’s @thetimes.com about Tom Stoppard

Excited to see our TIRTL-seq method published in Nature Methods www.nature.com/articles/s41...! Some updates after the revision: (1/4)

TIRTL-seq: deep, quantitative and affordable paired TCR repertoire sequencing - Nature Methods

TIRTL-seq is a high-throughput method for paired T cell receptor sequencing at the cohort scale.

nature.com

A therapeutic peptide vaccine for fibrolamellar hepatocellular carcinoma @naturemedicine.bsky.social @markyarchoan.bsky.social @hopkinspress.bsky.social @pgtimmune.bsky.social @fredhutch.org @stjude.bsky.social www.nature.com/articles/s41...

@natmethods.nature.com TIRTL-seq: deep, quantitative and affordable paired TCR repertoire sequencing www.nature.com/articles/s41... @pogorely.bsky.social @fredhutch.org @stjude.bsky.social @pgtimmune.bsky.social

We are hiring! We have a postdoc position opened @fredhutch.org to join our team to design next gen cellular therapies for cancer. Heavy focus on T cell signaling and understanding how synthetic receptors instruct T cells to fight cancer.

Two complementary studies from our group out today: a therapeutic peptide vaccine trial for fibrolamellar carcinoma (FLC) & TIRTL-Seq, our robust method for deep quantitative paired TCR sequencing a🧵w/ @markyarchoan.bsky.social & @pogorely.bsky.social www.nature.com/articles/s41...

TIRTL-seq: deep, quantitative and affordable paired TCR repertoire sequencing - Nature Methods

TIRTL-seq is a high-throughput method for paired T cell receptor sequencing at the cohort scale.

nature.com

excited that this paper is finally out in @pnas.org : www.pnas.org/doi/10.1073/... Led by Gian Marco Visani (effort initiated by Michael Pun), fantastic collaboration with @pgtimmune.bsky.social @asya-minervina.bsky.social and Phil Bradley.

T cell receptor specificity landscape revealed through de novo peptide design | PNAS

T cells play a key role in adaptive immunity by mounting specific responses against diverse pathogens. Effective bindings between T cell receptors ...

pnas.org

Armita Nourmohammad@thearmita.bsky.social · last yr.

check out our new manuscript (led by Gian Marco Visani): structure-based machine learning model for TCR-pMHC complexes, predicting T-cell affinity to peptide-MHC complexes, quantifying T-cell receptor specificity, and designing de-novo immunogenic peptides: arxiv.org/abs/2503.00648

After many rewarding years at @StJudeResearch surrounded by exceptional colleagues & groundbreaking science, I’m delighted to join @fredhutch to push boundaries in viral & cancer immunology. Grateful to St. Jude and looking forward to what’s next at FH! More here: www.fredhutch.org/en/news/cent...

Viral immunologist taps ‘incredible potential’ of immune system

New Fred Hutch Cancer Center viral immunologist Dr. Paul Thomas is working to turn the "incredible potential" of the immune system into real-life diagnostic and therapeutic applications. He studies ho...

fredhutch.org

Viral immunologist @pgtimmune.bsky.social, who recently joined Fred Hutch's Vaccine and Infectious Diseases Division, aims to harness the "incredible potential" of the immune system to advance diagnostics, vaccines and cancer therapies. bit.ly/3WJVpos

Viral immunologist taps ‘incredible potential’ of immune system

New Fred Hutch Cancer Center viral immunologist Dr. Paul Thomas is working to turn the "incredible potential" of the immune system into real-life diagnostic and therapeutic applications. He studies ho...

bit.ly

How much of the TCR repertoire can we make sense of? Can your TCR and GEX data be put in the context of other conditions/tissues? How many varieties of T cells are in the repertoire zoo? All these questions (& more) addressed in our latest preprint: MetaCoNGA www.biorxiv.org/content/10.1... . a 🧵

Diverse modes of T cell receptor sequence convergence define unique functional and cellular phenotypes

Single-cell techniques allow concurrent study of gene activity and T cell receptor (TCR) sequences, identifying connections between TCR structure and cell traits. Expanding on our CoNGA software, we p...

biorxiv.org

For transporting us beyond Seas to be tried for pretended offences

Now is a uniquely terrible time to cut funding for HIV www.motherjones.com/politics/202...

Now is a uniquely terrible time to cut funding for HIV

New breakthrough drugs could eradicate AIDS. Why are we hobbling their distribution?

motherjones.com

Hematopoietic aging drives lung fibrosis and profibrotic macrophage influx, stalling their maturation via reduced Treg-derived IL-10 @sciimmunology.bsky.social @asmafarhat.bsky.social www.science.org/doi/10.1126/...

Eric Skaar presented this week's hospital-wide Danny Thomas Lecture, and it was a spectacular talk! So far outside what I normally think about and my mind was blown 🤯 Such innovative use of imaging modalities! THIS is why it is important for all of us to attend talks outside our usual science lanes🧪

A collaborative work resulting in an exciting paper on influenza B virus and the differential immunity elicited by the Vic and Yam lineages. Neuraminidase-specific antibodies drive differential cross-protection between contemporary FLUBV lineages | Science Advances www.science.org/doi/10.1126/...

Neuraminidase-specific antibodies drive differential cross-protection between contemporary FLUBV lineages

FLUBV Victoria infection elicits NA-specific antibodies that provide cross-lineage protection, possibly driving Yamagata decline.

science.org

#MedSky🧪 #IDsky #immunosky #publichealth Age-associated changes to the bone marrow impact immune regulation in the lungs, which promotes inflammation and #fibrosis after lung injury. @knapplab.bsky.social via @sciimmunology.bsky.social www.science.org/doi/10.1126/...

An aging bone marrow exacerbates lung fibrosis by fueling profibrotic macrophage persistence

Hematopoietic aging drives lung fibrosis and profibrotic macrophage influx, stalling their maturation via reduced Treg-derived IL-10.

science.org

great thread on a great podcast!

Joseph Luna@virologistjoe.bsky.social · last yr.

I'm almost halfway through Night Science (I know, I'm so late on getting on this train). Apropos of absolutely nothing beyond their new logo, here are my top 8 favorite episodes from the first 30 installments of this gem of a podcast. @nightsciencepod.bsky.social nightscience.buzzsprout.com/1744020

Assessing CAR T cells cytotoxic capacity at the single-cell level can be tricky. Here we provide a method for encapsulating >500.000 single CAR T cells with single target cells in droplets together with reagents to examine killing using standard flow cytometry: app.jove.com/t/67657/drop...

I've got a new book extract in Wired! The book also has lots of stories about the history of controlled trials, case-control studies, cohort studies, confounding, causal inference and more - most of which I suspect you won't have heard before! You can order from: proof.kucharski.io

How a Cup of Tea Laid the Foundations for Modern Statistical Analysis

Scientific experiments run today are based on research practices that evolved out of a British tea-tasting experiment in the 1920s.

wired.com

"Nothing which was being done, no matter how stupid, no matter how many people knew and foretold the consequences, could be undone or prevented." - Hannah Arendt about Germany sliding to fascism in the 1920s and 30s.

Two weeks to go for our London Quantitative Immunology day on April 10th! Last chance to submit abstracts for contributed talks is today 👉 qimmuno.com/ldnday/

Long-term B cell memory emerges at uniform relative rates in the human immune response www.pnas.org/doi/10.1073/... @stephenquake.bsky.social

Ectopic germinal centers in the nasal turbinates contribute to B cell immunity to intranasal viral infection and vaccination @angelettilab.bsky.social www.pnas.org/doi/10.1073/...

Modern science wouldn’t exist without the online research repository known as arXiv. Three decades in, its creator still can’t let it go.

Inside arXiv—the Most Transformative Platform in All of Science

Modern science wouldn’t exist without the online research repository known as arXiv. Three decades in, its creator still can’t let it go.

wrd.cm

A nearly 9 year effort to design and implement new CLIP-based technologies to define multimeric protein assemblies on RNA. Enables ‘watching’ of RNP assemblies inside living cells Special congrats to Luca Ducoli, Brian Zarnegar, and Paul Khavari @nature.com www.nature.com/articles/s41...

NEW: @motherjones.com reports that one of the men renditioned to El Salvador is Neri Alvarado, who was working in Dallas as a baker. An ICE agent told him they were questioning all men with tattoos. Neri has an AUTISM AWARENESS TATTOO in honor of his 15-year-old brother with autism.

it's propagander

Coach Jerry (referee 🔵)@gopher33j.bsky.social · last yr.

I feel like this was written by a Goose - in an effort to eventually take over the world.

Part of what’s good about this piece of writing is the clarity of thought, which is deceptively hard to achieve even when the language is otherwise stylistically impressive. Kevin was above all a clear thinker in an extraordinarily broad range of subjects. Even in disagreement he was worth reading.

Jake Yeston@jakeyeston.bsky.social · last yr.

He was too prolific to summarize concisely, but I confess my favorite post was this one, grappling with the most intuitive way to express the ideas underpinning general relativity (a topic he liked to revisit once a year or so) www.motherjones.com/kevin-drum/2...