Paul Thomas
@pgtimmune.bsky.social
Division of Vaccine and Infectious Disease, Fred Hutchinson Cancer Center
TCRs, influenza virus, anti-tumor immunity, books, dogs, Venice
TCRs, influenza virus, anti-tumor immunity, books, dogs, Venice
Reposted by Paul Thomas
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.
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.
October 16, 2025 at 7:39 PM
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.
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 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...
www.fredhutch.org
November 7, 2025 at 9:12 PM
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...
Reposted by Paul Thomas
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
November 7, 2025 at 6:08 PM
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 🧵
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...
www.biorxiv.org
July 14, 2025 at 11:52 PM
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 🧵
Reposted by Paul Thomas
For transporting us beyond Seas to be tried for pretended offences
April 14, 2025 at 4:42 PM
For transporting us beyond Seas to be tried for pretended offences
Reposted by Paul Thomas
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?
www.motherjones.com
March 28, 2025 at 7:14 PM
Now is a uniquely terrible time to cut funding for HIV www.motherjones.com/politics/202...
Reposted by Paul Thomas
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/...
www.science.org/doi/10.1126/...
March 28, 2025 at 7:26 PM
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/...
www.science.org/doi/10.1126/...
Reposted by Paul Thomas
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🧪
March 28, 2025 at 7:28 PM
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🧪
Reposted by Paul Thomas
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 | 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.
www.science.org
March 28, 2025 at 6:25 PM
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 | Science Advances www.science.org/doi/10.1126/...
Reposted by Paul Thomas
#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/...
@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.
www.science.org
March 28, 2025 at 6:45 PM
#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/...
@knapplab.bsky.social via @sciimmunology.bsky.social
www.science.org/doi/10.1126/...
Reposted by Paul Thomas
great thread on a great podcast!
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
Night Science
Where do ideas come from? In each episode, scientists Itai Yanai and Martin Lercher explore science's creative side with a leading colleague. New episodes come out every second Monday.
nightscience.buzzsprout.com
March 27, 2025 at 10:51 PM
great thread on a great podcast!
Reposted by Paul Thomas
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...
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...
March 27, 2025 at 7:01 PM
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...
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...
Reposted by Paul Thomas
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
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.
www.wired.com
March 27, 2025 at 10:00 AM
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
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
Reposted by Paul Thomas
"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.
- Hannah Arendt about Germany sliding to fascism in the 1920s and 30s.
March 26, 2025 at 1:34 PM
"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.
- Hannah Arendt about Germany sliding to fascism in the 1920s and 30s.
Reposted by Paul Thomas
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/
LDNQImmuno · April 10th
qimmuno.com
March 27, 2025 at 10:06 AM
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/
Reposted by Paul Thomas
Long-term B cell memory emerges at uniform relative rates in the human immune response
www.pnas.org/doi/10.1073/...
@stephenquake.bsky.social
www.pnas.org/doi/10.1073/...
@stephenquake.bsky.social
March 27, 2025 at 3:52 AM
Long-term B cell memory emerges at uniform relative rates in the human immune response
www.pnas.org/doi/10.1073/...
@stephenquake.bsky.social
www.pnas.org/doi/10.1073/...
@stephenquake.bsky.social
Reposted by Paul Thomas
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/...
www.pnas.org/doi/10.1073/...
March 27, 2025 at 3:45 AM
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/...
www.pnas.org/doi/10.1073/...
Reposted by Paul Thomas
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
March 27, 2025 at 10:04 AM
Modern science wouldn’t exist without the online research repository known as arXiv. Three decades in, its creator still can’t let it go.
Reposted by Paul Thomas
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...
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...
March 26, 2025 at 5:40 PM
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...
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...
Reposted by Paul Thomas
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.
Neri has an AUTISM AWARENESS TATTOO in honor of his 15-year-old brother with autism.
March 26, 2025 at 7:49 PM
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.
Neri has an AUTISM AWARENESS TATTOO in honor of his 15-year-old brother with autism.
Reposted by Paul Thomas
it's propagander
I feel like this was written by a Goose - in an effort to eventually take over the world.
March 26, 2025 at 5:30 PM
it's propagander
Reposted by Paul Thomas
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.
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...
March 10, 2025 at 9:27 PM
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.
Reposted by Paul Thomas
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
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
March 4, 2025 at 4:29 AM
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
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
Reposted by Paul Thomas
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
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
February 21, 2025 at 8:47 PM
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
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
Reposted by Paul Thomas
Please enjoy our paper showing that Lck- coreceptor association is important for repertoire diversity and lineage fidelity in T cells ☺️
Now in #Science #Immunology: Justin Zhang, Jamie Rossjohn, @pzareie.bsky.social, @niclag.bsky.social, & al. generate LCK-FREE mice expressing mutated form of endogenous LCK that cannot bind to #CD4 or #CD8. These animals show defects in #TCell lineage fidelity & antigen-specific #TCR diversity!
LCK–co-receptor association ensures T cell lineage fidelity and maximizes epitope-specific TCR diversity
LCK-mutant mice help define the role of LCK–co-receptor association in T cell development and immune responses.
www.science.org
February 21, 2025 at 10:35 PM
Please enjoy our paper showing that Lck- coreceptor association is important for repertoire diversity and lineage fidelity in T cells ☺️