The Kueh lab
@kuehlab.bsky.social
Associate Professor @ Yale Immunobiology and Center for Systems and Engineering Immunology. Interested in cell fate decisions, circuits and the immune system.
Pinned
The Kueh lab
@kuehlab.bsky.social
· Jun 7
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
www.pnas.org
Excited to share that our study, on how T cells selectively sense foreign antigens with single-molecule sensitivity, is out! This work was led by the brilliant Will White, and done in collaboration with Jay Groves and David Baker @uwproteindesign.bsky.social
www.pnas.org/doi/10.1073/...
www.pnas.org/doi/10.1073/...
Reposted by The Kueh lab
BIG ANNOUNCEMENT📣: I haven’t been this excited to be part of something new in 15 years… Thrilled to reveal the passion project I’ve been working on for the past year and a half!🙀🥳 (thread 👇)
October 15, 2025 at 12:22 PM
BIG ANNOUNCEMENT📣: I haven’t been this excited to be part of something new in 15 years… Thrilled to reveal the passion project I’ve been working on for the past year and a half!🙀🥳 (thread 👇)
Reposted by The Kueh lab
"Imagine if we can apply the same approach across the entire world and start to map to capture the true diversity of the human immune system so we can build predictive models and figure out interventions." 🔆
Don't miss David Ewing Duncan's new substack:
davideduncan.substack.com/p/welcome-to...
Don't miss David Ewing Duncan's new substack:
davideduncan.substack.com/p/welcome-to...
Welcome to the Human Immunome—Conversations with Systems Immunologist John Tsang and Human Immunome Project Chair Jane Metcalfe
John and Jane are key subjects in my new investigative article for MIT Tech Review and Aventine. The column offers more details and musings on recent dramatic breakthroughs in immunomics
davideduncan.substack.com
October 10, 2025 at 12:58 PM
"Imagine if we can apply the same approach across the entire world and start to map to capture the true diversity of the human immune system so we can build predictive models and figure out interventions." 🔆
Don't miss David Ewing Duncan's new substack:
davideduncan.substack.com/p/welcome-to...
Don't miss David Ewing Duncan's new substack:
davideduncan.substack.com/p/welcome-to...
Reposted by The Kueh lab
Happy to announce the publication using advanced models to understand how T cells mediate efficient immunoediting in early sarcomas.
This was a collaboration between Julie Cheung and Brian Hunt
in the lab
Thanks to Cancer Cell for publishing our work.
www.cell.com/cancer-cell/...
This was a collaboration between Julie Cheung and Brian Hunt
in the lab
Thanks to Cancer Cell for publishing our work.
www.cell.com/cancer-cell/...
Distinct T cell functions enable efficient immunoediting and prevent tumor emergence of developing sarcomas
Cheung et al. describe efficient T cell control of nascent neoantigen+ and nearby
neoantigen-negative sarcoma cells, underlying a ∼50% reduction in tumor penetrance.
This otherwise imperceptible immun...
www.cell.com
October 2, 2025 at 4:50 PM
Happy to announce the publication using advanced models to understand how T cells mediate efficient immunoediting in early sarcomas.
This was a collaboration between Julie Cheung and Brian Hunt
in the lab
Thanks to Cancer Cell for publishing our work.
www.cell.com/cancer-cell/...
This was a collaboration between Julie Cheung and Brian Hunt
in the lab
Thanks to Cancer Cell for publishing our work.
www.cell.com/cancer-cell/...
Reposted by The Kueh lab
If the immune system is an army...
...
would you rather rely on one “super warrior” — or on a diverse team of fighters, even if none of them is the single strongest?
I’d go with the team.
Why? Check out our new study, just published in Science Immunology: www.science.org/doi/10.1126/...
...
would you rather rely on one “super warrior” — or on a diverse team of fighters, even if none of them is the single strongest?
I’d go with the team.
Why? Check out our new study, just published in Science Immunology: www.science.org/doi/10.1126/...
October 3, 2025 at 6:07 PM
If the immune system is an army...
...
would you rather rely on one “super warrior” — or on a diverse team of fighters, even if none of them is the single strongest?
I’d go with the team.
Why? Check out our new study, just published in Science Immunology: www.science.org/doi/10.1126/...
...
would you rather rely on one “super warrior” — or on a diverse team of fighters, even if none of them is the single strongest?
I’d go with the team.
Why? Check out our new study, just published in Science Immunology: www.science.org/doi/10.1126/...
Reposted by The Kueh lab
@biorxivpreprint.bsky.social STAT3 operates as an inflammation-dependent transcriptional switch @josephsunlab.bsky.social @simongrassmann.bsky.social @mskcancercenter.bsky.social
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
September 30, 2025 at 2:07 AM
@biorxivpreprint.bsky.social STAT3 operates as an inflammation-dependent transcriptional switch @josephsunlab.bsky.social @simongrassmann.bsky.social @mskcancercenter.bsky.social
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by The Kueh lab
The Vahedi Lab is seeking a highly motivated Research Specialist A/B to join our dynamic research group studying the mechanisms of immune regulation. Apply here: wd1.myworkdaysite.com/recruiting/u...
Research Specialist A/B
University Overview The University of Pennsylvania, the largest private employer in Philadelphia, is a world-renowned leader in education, research, and innovation. This historic, Ivy League school co...
wd1.myworkdaysite.com
September 23, 2025 at 9:47 PM
The Vahedi Lab is seeking a highly motivated Research Specialist A/B to join our dynamic research group studying the mechanisms of immune regulation. Apply here: wd1.myworkdaysite.com/recruiting/u...
Reposted by The Kueh lab
Thrilled to have our latest research @wehi-research.bsky.social published in @natimmunol.nature.com
www.nature.com/articles/s41...
This work was an outstanding partnership between talented PhD student Len Dalit (now postdoc, no 🦋) and bioinformatician @chinweetan.bsky.social
Thread below...
www.nature.com/articles/s41...
This work was an outstanding partnership between talented PhD student Len Dalit (now postdoc, no 🦋) and bioinformatician @chinweetan.bsky.social
Thread below...
Divergent cytokine and transcriptional signatures control functional T follicular helper cell heterogeneity - Nature Immunology
Dalit, Tan and colleagues provide a multiomic profile of T follicular helper (TFH) cells responses to diverse pathogens, revealing a blueprint for transcriptional flexibility and new tools to interrog...
www.nature.com
September 12, 2025 at 2:20 AM
Thrilled to have our latest research @wehi-research.bsky.social published in @natimmunol.nature.com
www.nature.com/articles/s41...
This work was an outstanding partnership between talented PhD student Len Dalit (now postdoc, no 🦋) and bioinformatician @chinweetan.bsky.social
Thread below...
www.nature.com/articles/s41...
This work was an outstanding partnership between talented PhD student Len Dalit (now postdoc, no 🦋) and bioinformatician @chinweetan.bsky.social
Thread below...
One more thing to mention: we are thrilled to be joining the vibrant and growing Systems Immunology community here, led by @tsanglab.bsky.social. There will be much collaborative work with the vision of understanding and rebuilding the immune system from the ground up, so stay tuned!
We have some news to share: The Kueh lab is moving to Yale this fall! We will be joining the Yale Center for Systems and Engineering Immunology @yalecsei.bsky.social and the Department of Immunobiology.
medicine.yale.edu/systems-engi...
medicine.yale.edu/systems-engi...
Research
The immune system is a spatially distributed, whole-body sensory-reactive system that monitors, reacts, and adapts to various stress signals (e.g., tissue
medicine.yale.edu
August 20, 2025 at 6:13 AM
One more thing to mention: we are thrilled to be joining the vibrant and growing Systems Immunology community here, led by @tsanglab.bsky.social. There will be much collaborative work with the vision of understanding and rebuilding the immune system from the ground up, so stay tuned!
We have some news to share: The Kueh lab is moving to Yale this fall! We will be joining the Yale Center for Systems and Engineering Immunology @yalecsei.bsky.social and the Department of Immunobiology.
medicine.yale.edu/systems-engi...
medicine.yale.edu/systems-engi...
Research
The immune system is a spatially distributed, whole-body sensory-reactive system that monitors, reacts, and adapts to various stress signals (e.g., tissue
medicine.yale.edu
August 19, 2025 at 2:53 AM
We have some news to share: The Kueh lab is moving to Yale this fall! We will be joining the Yale Center for Systems and Engineering Immunology @yalecsei.bsky.social and the Department of Immunobiology.
medicine.yale.edu/systems-engi...
medicine.yale.edu/systems-engi...
Reposted by The Kueh lab
This week @science.org examines the wonders of the immune system! From molecular defences that co-evolved with pathogens to specialised cells that are intricately linked with physiology, the immune system is attuned to biological sex and different stages of life.
A new special issue of Science explores the immune system at the molecular and cellular level and how it has evolved to govern multiple facets of human health.
Learn more: scim.ag/3IYhnk7
Learn more: scim.ag/3IYhnk7
August 7, 2025 at 6:17 PM
This week @science.org examines the wonders of the immune system! From molecular defences that co-evolved with pathogens to specialised cells that are intricately linked with physiology, the immune system is attuned to biological sex and different stages of life.
Reposted by The Kueh lab
Woohoo! From superstars ionut and Marta in the Frisén lab! www.science.org/doi/10.1126/... can’t wait to see what the anti-neurogenesis folks say about it 😃
Identification of proliferating neural progenitors in the adult human hippocampus
Continuous adult hippocampal neurogenesis is involved in memory formation and mood regulation but is challenging to study in humans. Difficulties finding proliferating progenitor cells called into que...
www.science.org
July 3, 2025 at 6:54 PM
Woohoo! From superstars ionut and Marta in the Frisén lab! www.science.org/doi/10.1126/... can’t wait to see what the anti-neurogenesis folks say about it 😃
Reposted by The Kueh lab
EPIGENETIC HULK READY TO SMASH AGAIN! GET IN LOSERS!
June 13, 2025 at 4:30 AM
EPIGENETIC HULK READY TO SMASH AGAIN! GET IN LOSERS!
Excited to share that our study, on how T cells selectively sense foreign antigens with single-molecule sensitivity, is out! This work was led by the brilliant Will White, and done in collaboration with Jay Groves and David Baker @uwproteindesign.bsky.social
www.pnas.org/doi/10.1073/...
www.pnas.org/doi/10.1073/...
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
www.pnas.org
June 7, 2025 at 8:05 PM
Excited to share that our study, on how T cells selectively sense foreign antigens with single-molecule sensitivity, is out! This work was led by the brilliant Will White, and done in collaboration with Jay Groves and David Baker @uwproteindesign.bsky.social
www.pnas.org/doi/10.1073/...
www.pnas.org/doi/10.1073/...
Reposted by The Kueh lab
First Phase 2 randomized trial of engineered T cells for a solid tumor—GI cancer— with some encouraging results
www.thelancet.com/journals/lan... @thelancet.com
www.thelancet.com/journals/lan... @thelancet.com
May 31, 2025 at 8:16 PM
First Phase 2 randomized trial of engineered T cells for a solid tumor—GI cancer— with some encouraging results
www.thelancet.com/journals/lan... @thelancet.com
www.thelancet.com/journals/lan... @thelancet.com
Reposted by The Kueh lab
🚨 New #preprint alert!
We're excited to share our latest work:
"Single-Allele Chromatin Tracing Reveals Genomic Clustering of Paralogous Transcription Factors as a Mechanism for Developmental Robustness in T Cells"🔗 tinyurl.com/4ve26tbd
We're excited to share our latest work:
"Single-Allele Chromatin Tracing Reveals Genomic Clustering of Paralogous Transcription Factors as a Mechanism for Developmental Robustness in T Cells"🔗 tinyurl.com/4ve26tbd
June 2, 2025 at 8:33 PM
🚨 New #preprint alert!
We're excited to share our latest work:
"Single-Allele Chromatin Tracing Reveals Genomic Clustering of Paralogous Transcription Factors as a Mechanism for Developmental Robustness in T Cells"🔗 tinyurl.com/4ve26tbd
We're excited to share our latest work:
"Single-Allele Chromatin Tracing Reveals Genomic Clustering of Paralogous Transcription Factors as a Mechanism for Developmental Robustness in T Cells"🔗 tinyurl.com/4ve26tbd
Reposted by The Kueh lab
Check out this new study and TCR Tg mouse generated by Endi Santosa @endicytosis.bsky.social. If you are interested in studying classic and inflationary CD8+ T cell memory to MCMV infection, we’re happy to share this mouse, and @laboxenius.bsky.social is extremely generous with her Tg lines as well.
Defining molecular circuits of CD8+ T cell responses in tissues during latent viral infection | Journal of Experimental Medicine | Rockefeller University Press
Our findings reveal a divergent transcriptomic and epigenetic landscape between conventional and inflationary memory responses in spleen and liver during l
rupress.org
May 20, 2025 at 1:51 PM
Check out this new study and TCR Tg mouse generated by Endi Santosa @endicytosis.bsky.social. If you are interested in studying classic and inflationary CD8+ T cell memory to MCMV infection, we’re happy to share this mouse, and @laboxenius.bsky.social is extremely generous with her Tg lines as well.
Reposted by The Kueh lab
(1/n) New preprint from @claricehongky.bsky.social
Fan Fang Varshini Ramanathan in collab w Jie Liu.
Q: How do we get ultra-high-res 3D genome maps?
A: New deep learning model, Cleopatra.
Cleo trains on Micro-C, fine-tunes on RCMC, and predicts genome-wide 3D maps at ultra-high resolution.
Fan Fang Varshini Ramanathan in collab w Jie Liu.
Q: How do we get ultra-high-res 3D genome maps?
A: New deep learning model, Cleopatra.
Cleo trains on Micro-C, fine-tunes on RCMC, and predicts genome-wide 3D maps at ultra-high resolution.
May 7, 2025 at 8:53 PM
(1/n) New preprint from @claricehongky.bsky.social
Fan Fang Varshini Ramanathan in collab w Jie Liu.
Q: How do we get ultra-high-res 3D genome maps?
A: New deep learning model, Cleopatra.
Cleo trains on Micro-C, fine-tunes on RCMC, and predicts genome-wide 3D maps at ultra-high resolution.
Fan Fang Varshini Ramanathan in collab w Jie Liu.
Q: How do we get ultra-high-res 3D genome maps?
A: New deep learning model, Cleopatra.
Cleo trains on Micro-C, fine-tunes on RCMC, and predicts genome-wide 3D maps at ultra-high resolution.
Reposted by The Kueh lab
Check out this great resource of single cell multiome data, cell annotations, regulatory DNA models of cell type resolved chromatin accessibility & comprehensive annotation of motifs & sequence syntax for multiple tissues in early human development 1/
Delighted to share our latest work deciphering the landscape of chromatin accessibility and modeling the DNA sequence syntax rules underlying gene regulation during human fetal development! www.biorxiv.org/content/10.1... Read on for more: 🧵 1/16 #GeneReg 🧬🖥️
Dissecting regulatory syntax in human development with scalable multiomics and deep learning
Transcription factors (TFs) establish cell identity during development by binding regulatory DNA in a sequence-specific manner, often promoting local chromatin accessibility, and regulating gene expre...
www.biorxiv.org
May 4, 2025 at 1:43 AM
Check out this great resource of single cell multiome data, cell annotations, regulatory DNA models of cell type resolved chromatin accessibility & comprehensive annotation of motifs & sequence syntax for multiple tissues in early human development 1/
Reposted by The Kueh lab
1. For the past thirty years I've had the best job in the world.
I've had the opportunity to follow my curiosity; explore the workings of nature and society; mentor students and junior colleagues in the same process; and teach generations of students about it all.
I've had the opportunity to follow my curiosity; explore the workings of nature and society; mentor students and junior colleagues in the same process; and teach generations of students about it all.
March 19, 2025 at 7:32 PM
1. For the past thirty years I've had the best job in the world.
I've had the opportunity to follow my curiosity; explore the workings of nature and society; mentor students and junior colleagues in the same process; and teach generations of students about it all.
I've had the opportunity to follow my curiosity; explore the workings of nature and society; mentor students and junior colleagues in the same process; and teach generations of students about it all.
Reposted by The Kueh lab
Delighted to have our Perturb-multiome paper, led by #JorgeMartinRufino and @hemagene.bsky.social from our lab, published today in @science.org. Please check out this powerful approach to decipher gene regulatory networks enriched for genetic variation: www.science.org/doi/10.1126/...
Transcription factor networks disproportionately enrich for heritability of blood cell phenotypes
Most phenotype-associated genetic variants map to noncoding regulatory regions of the human genome, but their mechanisms remain elusive in most cases. We developed a highly efficient strategy, Perturb...
www.science.org
April 3, 2025 at 11:57 PM
Delighted to have our Perturb-multiome paper, led by #JorgeMartinRufino and @hemagene.bsky.social from our lab, published today in @science.org. Please check out this powerful approach to decipher gene regulatory networks enriched for genetic variation: www.science.org/doi/10.1126/...
Reposted by The Kueh lab
Reposted by The Kueh lab
It’s the economy stupid- “There is no better investment than one that saves lives, supports local economies and drives America’s global leadership in biomedical innovation” www.forbes.com/sites/michae...
NIH Grants Fueled $95 Billion In FY 2024 Economic Activity, Finds New Report
National Institutes of Health grants generated almost $95 billion in economic activity nationwide in FY 2024 according to a new report by United for Medical Research.
www.forbes.com
March 13, 2025 at 3:22 AM
It’s the economy stupid- “There is no better investment than one that saves lives, supports local economies and drives America’s global leadership in biomedical innovation” www.forbes.com/sites/michae...
Reposted by The Kueh lab
Delighted to share my PhD thesis work is now published in @nature.com! This study tracks the journey of blood stem cells in aging mice, examining how the clonal dynmics of blood production change over time. A short 🧵1/n #aging #stemcells #clonalhematopoiesis
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Clonal dynamics and somatic evolution of haematopoiesis in mouse - Nature
Isolating and studying haematopoietic stem cells in young and aged mice demonstrates evolutionary processes related to blood production and provides a framework for interpreting future work using labo...
www.nature.com
March 6, 2025 at 1:58 PM
Delighted to share my PhD thesis work is now published in @nature.com! This study tracks the journey of blood stem cells in aging mice, examining how the clonal dynmics of blood production change over time. A short 🧵1/n #aging #stemcells #clonalhematopoiesis
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by The Kueh lab
I am overjoyed to present our latest paper on Autophagy in CD8 Tcells!
www.nature.com/articles/s41...
It was, as all ‘sciencing’ is, a huge team effort.
I will try to do it some justice in the following thread 😊 1/n
@cantrell-lab.bsky.social @immpres.bsky.social @ajmhowden.bsky.social
www.nature.com/articles/s41...
It was, as all ‘sciencing’ is, a huge team effort.
I will try to do it some justice in the following thread 😊 1/n
@cantrell-lab.bsky.social @immpres.bsky.social @ajmhowden.bsky.social
Autophagy repression by antigen and cytokines shapes mitochondrial, migration and effector machinery in CD8 T cells - Nature Immunology
Sinclair et al. combine quantitative proteomics and an autophagy flux reporter to map autophagy substrates and triggers during CD8 T cell differentiation. Proteins degraded and fueled by autophagy in ...
www.nature.com
March 1, 2025 at 11:18 AM
I am overjoyed to present our latest paper on Autophagy in CD8 Tcells!
www.nature.com/articles/s41...
It was, as all ‘sciencing’ is, a huge team effort.
I will try to do it some justice in the following thread 😊 1/n
@cantrell-lab.bsky.social @immpres.bsky.social @ajmhowden.bsky.social
www.nature.com/articles/s41...
It was, as all ‘sciencing’ is, a huge team effort.
I will try to do it some justice in the following thread 😊 1/n
@cantrell-lab.bsky.social @immpres.bsky.social @ajmhowden.bsky.social
Reposted by The Kueh lab
I'm going to Stand Up for Science 2025 in Seattle. Seattle friends, come join! Fri March 7. Mural Amphitheatre at Seattle Center. 305 Harrison Street, Seattle. 12-3pm PST.
Welcome to the Bluesky account for Stand Up for Science 2025!
Keep an eye on this space for updates, event information, and ways to get involved. We can't wait to see everyone #standupforscience2025 on March 7th, both in DC and locations nationwide!
#scienceforall #sciencenotsilence
Keep an eye on this space for updates, event information, and ways to get involved. We can't wait to see everyone #standupforscience2025 on March 7th, both in DC and locations nationwide!
#scienceforall #sciencenotsilence
February 28, 2025 at 7:23 PM
I'm going to Stand Up for Science 2025 in Seattle. Seattle friends, come join! Fri March 7. Mural Amphitheatre at Seattle Center. 305 Harrison Street, Seattle. 12-3pm PST.