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)

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...

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.

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 @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

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 🧵

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...

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/...

#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/...

great thread on a great podcast!

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

"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.

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

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.

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

I chatted with a program director at NIH for a half hour just now It's clear that the people who make American science happen are doing everything they can to keep making it happen in a very difficult environment They deserve our respect and gratitude

Please enjoy our paper showing that Lck- coreceptor association is important for repertoire diversity and lineage fidelity in T cells ☺️

I agree. It seems extremely unlikely that they are trying to get grants flowing again. One of my concerns is that they may be hoping to delay things enough that NIH will not have time to get appropriated funds issued by September 30th, the end of the fiscal year. 1/n

Word discovery of the day is ‘yoke-devil’ (17th century): an accomplice in a villainous or immoral undertaking.

We all owe @jeremymberg.bsky.social a debt of gratitude for his work in clarifying, connecting, and advocating for science in this chaotic time. 🙏🏼

HHS blocked posting indefinitely. Not enough press is being given to this back door approach to blocking NIH grants. If and when it is lifted will still be 35 days before study sections can be held

But many people were not new employees. They were long time employees who had recently been promoted because of their experience and good work, landing on probationary status (don’t ask me why the govt does this) purely because of their ‘good fortune’. Letting these folks go is stupid and cruel. /3

Disease diagnostics using machine learning of B cell and T cell receptor sequences @science.org www.science.org/doi/10.1126/... @zazius.bsky.social @anshulkundaje.bsky.social @scottboydlab.bsky.social

Ever heard of "systems immunology"? On March 3, Sai Reddy from @ethzurich.bsky.social will give an "MDC Lecture" at the @mdc-berlin.bsky.social exploring this emerging field. Check out our interview and get a sneak peek into his world! ➡️ www.mdc-berlin.de/news/news/en... #mdcBerlin | #mdcBIMSB

Disease diagnostics using machine learning of B cell and T cell receptor sequences www.science.org/doi/10.1126/... TL;DR: BCRs ARE ALL YOU NEED! (Well actually .... keep reading) 1/

Amid the chaos over USAID funding and waivers, one thing is clear: PrEP (pre-exposure prophylaxis) for HIV prevention is not funded—unless you're pregnant or breastfeeding. 2025 could have marked the start of an HIV-free generation. 🧵

It seems like study sections for the Feb cycle are being pushed back until May. There will be a pile up of reviews in the “best” case scenario that something “normal” happens again. We will all need to step up & ad hoc our hearts out to help the SROs with the backlog (assuming things do get better)

Experimental evolution of evolvability @science.org by Michael Barnett, Lena Meister, and paul Rainey at @mpi-evolbio.bsky.social www.science.org/doi/10.1126/...

Special shout out this AM to NIH 🧪 grant mgmt specialists, POs, and SROs during this chaotic time - THANK YOU for caring for our grants and uploading scores/summary statements despite the unprecedented challenges you may be facing. You are science warriors and we APPRECIATE & SUPPORT YOU 🫶

The Oregon Trail generation speaks

#flu #nec #medsky

Functional memory T cells are derived from exhausted clones and expanded by checkpoint blockade https://www.biorxiv.org/content/10.1101/2025.02.10.637523v1

TIL when you sort the codon wheel by the second base the quadrants align with the properties of the amino acids being coded for and also it looks like the mystic sigil of the coven of the four bases journals.asm.org/doi/pdf/10.1...

If you worked in an HR department and fired a whole bunch of people to meet a quota, then realized you actually need these people to run the company, and then had to rehire the same people (which might be kind of difficult now), the next person the HR department should be firing is you.

GLP-1 drugs have transformed obesity and diabetes treatments, exhibiting profound weight loss and anti-inflammatory impact. Should we think about this like the good parts of a hookworm infection but with less of the bad parts of a hookworm infection? pmc.ncbi.nlm.nih.gov/articles/PMC...

“Defeating the Measles Demon”, by Utagawa Yoshifugi from 1862, when a massive measles outbreak hit Tokyo and killed thousands. As written in the description, the “wry humour [of these prints] encouraged social solidarity and gave hope and levity to people affected by the virus”. Link to info below.