New de-novo TCR design preprint from @dkarthikey1.bsky.social just dropped:
TCR-TRANSLATE: Conditional Generation of Real Antigen Specific T-cell Receptor Sequences
www.biorxiv.org/content/10.1...
TCR-TRANSLATE: Conditional Generation of Real Antigen Specific T-cell Receptor Sequences
www.biorxiv.org/content/10.1...
November 13, 2024 at 3:29 AM
New de-novo TCR design preprint from @dkarthikey1.bsky.social just dropped:
TCR-TRANSLATE: Conditional Generation of Real Antigen Specific T-cell Receptor Sequences
www.biorxiv.org/content/10.1...
TCR-TRANSLATE: Conditional Generation of Real Antigen Specific T-cell Receptor Sequences
www.biorxiv.org/content/10.1...
TCR specificity prediction is advancing rapidly. The central question is not only which TCR sequence recognizes an antigen, but also which TCR pairings make recognition possible & where is the binding boundary? Our new paper tackles these questions. 🧵 www.science.org/doi/10.1126/...
Uneven TCR chain pairing constraints govern epitope recognition
Combinatorial pairing of independently recombined T cell receptor (TCR) α- and β-chains is central to diversifying the TCR repertoire. Although sequence motifs in one chain correlate with epitope reco...
www.science.org
September 4, 2026 at 2:54 PM
TCR specificity prediction is advancing rapidly. The central question is not only which TCR sequence recognizes an antigen, but also which TCR pairings make recognition possible & where is the binding boundary? Our new paper tackles these questions. 🧵 www.science.org/doi/10.1126/...
TCR specificity can be hard to understand. See our latest work showing how dynamic allostery in a peptide/MHC complex can control TCR specificity towards a public neoantigen. Great collaboration with Chris Klebanoff and team at @mskcancercenter.bsky.social #immunosky
doi.org/10.1038/s414...
1/7
doi.org/10.1038/s414...
1/7
Dynamic allostery in the peptide/MHC complex enables TCR neoantigen selectivity - Nature Communications
While static structures can provide insight into T cell receptor (TCR) antigen specificity, this often fails and auxiliary information is needed. Here the authors show, by focusing on an HLA-A3-bound ...
doi.org
January 20, 2025 at 8:31 PM
TCR specificity can be hard to understand. See our latest work showing how dynamic allostery in a peptide/MHC complex can control TCR specificity towards a public neoantigen. Great collaboration with Chris Klebanoff and team at @mskcancercenter.bsky.social #immunosky
doi.org/10.1038/s414...
1/7
doi.org/10.1038/s414...
1/7
This won’t come as a surprise to the TCR-antigen gurus, but I did want to share some lessons we learned re: partial TCR sequence alignments as predictions for antigen specificity from this study 1/
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...
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...
www.nature.com
February 10, 2026 at 6:55 PM
This won’t come as a surprise to the TCR-antigen gurus, but I did want to share some lessons we learned re: partial TCR sequence alignments as predictions for antigen specificity from this study 1/
Intestinal CD4−CD8αβ−TCRαβ+ T cells function as tolerogenic antigen presenting cells in mice
@natcomms.nature.com
www.nature.com/articles/s41...
@natcomms.nature.com
www.nature.com/articles/s41...
August 2, 2025 at 3:27 AM
Intestinal CD4−CD8αβ−TCRαβ+ T cells function as tolerogenic antigen presenting cells in mice
@natcomms.nature.com
www.nature.com/articles/s41...
@natcomms.nature.com
www.nature.com/articles/s41...
In 2018, Microsoft and Adaptive Biotechnologies launched an unusually ambitious collaboration to develop a comprehensive TCR–antigen map. What became of it? Did they actually succeed?
#science
#immunology
#science
#immunology
October 2, 2026 at 9:58 PM
In 2018, Microsoft and Adaptive Biotechnologies launched an unusually ambitious collaboration to develop a comprehensive TCR–antigen map. What became of it? Did they actually succeed?
#science
#immunology
#science
#immunology
Our new work!
The 3D affinities of the OT-I TCR to foreign and self-antigens predict their 2D affinities and reveal imperfect antigen discrimination
www.biorxiv.org/content/10.1...
The 3D affinities of the OT-I TCR to foreign and self-antigens predict their 2D affinities and reveal imperfect antigen discrimination
www.biorxiv.org/content/10.1...
January 16, 2025 at 8:10 AM
Our new work!
The 3D affinities of the OT-I TCR to foreign and self-antigens predict their 2D affinities and reveal imperfect antigen discrimination
www.biorxiv.org/content/10.1...
The 3D affinities of the OT-I TCR to foreign and self-antigens predict their 2D affinities and reveal imperfect antigen discrimination
www.biorxiv.org/content/10.1...
🚀 New publication! We developed a PTPRZ1-specific TCR-T cell therapy for glioblastoma.
🔬 Key findings:
✅ Identified a PTPRZ1-reactive TCR from a vaccinated patient
✅ Kills glioblastoma cells with no off-target effects
✅ Eliminates tumors in murine brain models
🔗 www.nature.com/articles/s41...
🔬 Key findings:
✅ Identified a PTPRZ1-reactive TCR from a vaccinated patient
✅ Kills glioblastoma cells with no off-target effects
✅ Eliminates tumors in murine brain models
🔗 www.nature.com/articles/s41...
Vaccine-induced T cell receptor T cell therapy targeting a glioblastoma stemness antigen - Nature Communications
Vaccination in glioblastomas does lead to the emergence of tumour-antigen-specific T cells but T cell dysfunction, poor tumour infiltration and persistence hinder efficient tumour killing. Here author...
www.nature.com
February 11, 2025 at 11:29 AM
🚀 New publication! We developed a PTPRZ1-specific TCR-T cell therapy for glioblastoma.
🔬 Key findings:
✅ Identified a PTPRZ1-reactive TCR from a vaccinated patient
✅ Kills glioblastoma cells with no off-target effects
✅ Eliminates tumors in murine brain models
🔗 www.nature.com/articles/s41...
🔬 Key findings:
✅ Identified a PTPRZ1-reactive TCR from a vaccinated patient
✅ Kills glioblastoma cells with no off-target effects
✅ Eliminates tumors in murine brain models
🔗 www.nature.com/articles/s41...
Deep peptide recognition profiling decodes TCR specificity and enables disease-associated antigen discovery - @stanfordmedicine.bsky.social go.nature.com/3QWMRet
Deep peptide recognition profiling decodes TCR specificity and enables disease-associated antigen discovery - Nature Biotechnology
A deep-learning method predicts T cell receptor specificity and disease-associated antigens.
go.nature.com
May 13, 2026 at 1:28 PM
Deep peptide recognition profiling decodes TCR specificity and enables disease-associated antigen discovery - @stanfordmedicine.bsky.social go.nature.com/3QWMRet
Our new work!
We show that T cell cross-reactivity can be reduced without modifying the TCR itself (by dramatically enhancing antigen discrimination).
Generation of T cells with reduced off-target cross-reactivities by engineering co-signalling receptors
www.biorxiv.org/content/10.1...
We show that T cell cross-reactivity can be reduced without modifying the TCR itself (by dramatically enhancing antigen discrimination).
Generation of T cells with reduced off-target cross-reactivities by engineering co-signalling receptors
www.biorxiv.org/content/10.1...
November 20, 2024 at 9:55 AM
Our new work!
We show that T cell cross-reactivity can be reduced without modifying the TCR itself (by dramatically enhancing antigen discrimination).
Generation of T cells with reduced off-target cross-reactivities by engineering co-signalling receptors
www.biorxiv.org/content/10.1...
We show that T cell cross-reactivity can be reduced without modifying the TCR itself (by dramatically enhancing antigen discrimination).
Generation of T cells with reduced off-target cross-reactivities by engineering co-signalling receptors
www.biorxiv.org/content/10.1...
TCR origin and specificity to environmental or self-antigens on distinct antigen-presenting cells determine peripheral Treg cell differentiation: @cp-immunity.bsky.social www.cell.com/immunity/ful...
TCR origin and specificity to environmental or self-antigens on distinct antigen-presenting cells determine peripheral Treg cell differentiation
Using CRISPR-based TCR editing, Chi et al. systematically compare gut TCRs recognizing
dietary, microbial, and self-antigens to define the principles that govern peripheral
Treg cell differentiation. ...
www.cell.com
October 2, 2026 at 11:50 AM
TCR origin and specificity to environmental or self-antigens on distinct antigen-presenting cells determine peripheral Treg cell differentiation: @cp-immunity.bsky.social www.cell.com/immunity/ful...
🚀 #OnAIRR 21 is here! Recorded live at the 4th Antwerp TCR meeting, Dr. @hannahvmeyer.bsky.social, Prof. @kischober.bsky.social, and Prof. @hkoohy.bsky.social join the podcast to ask: can we predict which epitope a TCR recognizes? 🎧 Listen in podcast apps or onairr.airr-community.org
#ImmunoSky
#ImmunoSky
September 2, 2026 at 2:14 PM
Review @natrevrheumatol.bsky.social
Antigen-driven T cell responses in rheumatic diseases: insights from T cell receptor repertoire studies
www.nature.com/articles/s41...
Antigen-driven T cell responses in rheumatic diseases: insights from T cell receptor repertoire studies
www.nature.com/articles/s41...
Antigen-driven T cell responses in rheumatic diseases: insights from T cell receptor repertoire studies - Nature Reviews Rheumatology
Garrido-Mesa and Brown review findings from TCR profiling studies in rheumatic diseases and discuss how improved study design might help elicit information about autoreactive T cell clones and their c...
www.nature.com
February 8, 2025 at 6:53 PM
Review @natrevrheumatol.bsky.social
Antigen-driven T cell responses in rheumatic diseases: insights from T cell receptor repertoire studies
www.nature.com/articles/s41...
Antigen-driven T cell responses in rheumatic diseases: insights from T cell receptor repertoire studies
www.nature.com/articles/s41...
TCRγ constant usage tunes human γδ T cell antigen sensitivity, thymic programming, and peripheral function
#gdTcells @sciimmunology.bsky.social
#gdTcells @sciimmunology.bsky.social
TCRγ constant usage tunes human γδ T cell antigen sensitivity, thymic programming, and peripheral function
The human TCRγδ constant region modulates T cell activation and corresponds with T cell clonal expansion and function.
www.science.org
February 14, 2026 at 11:23 PM
TCRγ constant usage tunes human γδ T cell antigen sensitivity, thymic programming, and peripheral function
#gdTcells @sciimmunology.bsky.social
#gdTcells @sciimmunology.bsky.social
Hi, we would like to introduce PAIR-Scan, an HLA-agnostic library-on-library screening technology that can identify reactive TCR–antigen pairs with optimal killing activity among up to ~100,000 possible candidate pairs in a single-step.
🧵(1/7)
www.biorxiv.org/content/10.6...
🧵(1/7)
www.biorxiv.org/content/10.6...
www.biorxiv.org
September 29, 2026 at 1:41 PM
Hi, we would like to introduce PAIR-Scan, an HLA-agnostic library-on-library screening technology that can identify reactive TCR–antigen pairs with optimal killing activity among up to ~100,000 possible candidate pairs in a single-step.
🧵(1/7)
www.biorxiv.org/content/10.6...
🧵(1/7)
www.biorxiv.org/content/10.6...
When a T cell carries both its natural TCR and an engineered CAR, do these two receptors cooperate - or compete?
Our new preprint on bioRxiv shows that TCR activation can enhance CAR-T activation but impairs CAR-mediated killing when targets are on separate cells.
www.biorxiv.org/content/10.1...
Our new preprint on bioRxiv shows that TCR activation can enhance CAR-T activation but impairs CAR-mediated killing when targets are on separate cells.
www.biorxiv.org/content/10.1...
TCR activation impairs CAR-T cytotoxicity against separate target cells
Chimeric antigen receptor T cells (CAR-T) are effective therapeutics against cancer and autoimmunity, but whether the endogenous T cell receptor (TCR) is beneficial, detrimental or irrelevant for CAR ...
www.biorxiv.org
October 8, 2025 at 6:06 AM
When a T cell carries both its natural TCR and an engineered CAR, do these two receptors cooperate - or compete?
Our new preprint on bioRxiv shows that TCR activation can enhance CAR-T activation but impairs CAR-mediated killing when targets are on separate cells.
www.biorxiv.org/content/10.1...
Our new preprint on bioRxiv shows that TCR activation can enhance CAR-T activation but impairs CAR-mediated killing when targets are on separate cells.
www.biorxiv.org/content/10.1...
ATLAS-seq: a microfluidic single-cell TCR screen for antigen-reactive TCRs
@naturecomms.bsky.social
www.nature.com/articles/s41...
@naturecomms.bsky.social
www.nature.com/articles/s41...
January 3, 2025 at 6:17 PM
ATLAS-seq: a microfluidic single-cell TCR screen for antigen-reactive TCRs
@naturecomms.bsky.social
www.nature.com/articles/s41...
@naturecomms.bsky.social
www.nature.com/articles/s41...
'We used a high-throughput platform to systematically evaluate the impact of co-expressing a TCR and CAR on the same CAR T cell. While strong TCR-antigen interactions enhanced CAR activation, weak TCR-antigen interactions actively antagonized their activation'
#Immunology #Immunotherapy
#Immunology #Immunotherapy
Engineering TCR-controlled fuzzy logic into CAR T cells enhances therapeutic specificity
Robot-assisted analysis and theoretical modeling of TCR/CAR crosstalk enable the design
of adoptive T cell therapies that maximize anti-tumor activity and minimize toxicity
in healthy tissues.
www.cell.com
April 12, 2025 at 12:42 PM
'We used a high-throughput platform to systematically evaluate the impact of co-expressing a TCR and CAR on the same CAR T cell. While strong TCR-antigen interactions enhanced CAR activation, weak TCR-antigen interactions actively antagonized their activation'
#Immunology #Immunotherapy
#Immunology #Immunotherapy
LoFT-TCR: A LoRA-based Fine-tuning Framework for TCR-Antigen Binding Prediction https://www.biorxiv.org/content/10.1101/2025.09.25.678699v1
September 27, 2025 at 10:16 PM
LoFT-TCR: A LoRA-based Fine-tuning Framework for TCR-Antigen Binding Prediction https://www.biorxiv.org/content/10.1101/2025.09.25.678699v1
University of Zurich, mouse models found exhausted CD8 T cells could still be reactivated by IL-12 and IL-18, producing more IFNγ than antigen stimulation without increasing TOX.
The cells also improved pathogen control.
www.biorxiv.org/content/10.6...
The cells also improved pathogen control.
www.biorxiv.org/content/10.6...
Cytokine-mediated activation of exhausted T cells
CD8⁺ T cell exhaustion during chronic infection and cancer is marked by impaired effector function and limited responsiveness to stimulation. While memory CD8⁺ T cells can be activated TCR-independent...
www.biorxiv.org
October 5, 2026 at 2:42 PM
University of Zurich, mouse models found exhausted CD8 T cells could still be reactivated by IL-12 and IL-18, producing more IFNγ than antigen stimulation without increasing TOX.
The cells also improved pathogen control.
www.biorxiv.org/content/10.6...
The cells also improved pathogen control.
www.biorxiv.org/content/10.6...
7 million pairs! A great resource for TCR-antigen interaction.
TRAIT: A Comprehensive Database for T-cell Receptor-Antigen Interactions www.biorxiv.org/content/10.1...
TRAIT: A Comprehensive Database for T-cell Receptor-Antigen Interactions www.biorxiv.org/content/10.1...
December 3, 2024 at 2:45 PM
7 million pairs! A great resource for TCR-antigen interaction.
TRAIT: A Comprehensive Database for T-cell Receptor-Antigen Interactions www.biorxiv.org/content/10.1...
TRAIT: A Comprehensive Database for T-cell Receptor-Antigen Interactions www.biorxiv.org/content/10.1...
Online now: TCR origin and specificity to environmental or self-antigens on distinct antigen-presenting cells determine peripheral Treg cell differentiation
TCR origin and specificity to environmental or self-antigens on distinct antigen-presenting cells determine peripheral Treg cell differentiation
Using CRISPR-based TCR editing, Chi et al. systematically compare gut TCRs recognizing dietary, microbial, and self-antigens to define the principles that govern peripheral Treg cell differentiation. They find that TCR identity encodes pTreg cell generation, phenotype, and antigen-presenting cell dependence, establishing TCR specificity as a primary organizer of peripheral immune tolerance.
dlvr.it
July 28, 2026 at 7:55 PM
Online now: TCR origin and specificity to environmental or self-antigens on distinct antigen-presenting cells determine peripheral Treg cell differentiation
Our work accurately measuring the 3D affinity between the OT-I TCR and a large number of foreign and self antigen ligands is now published at EMBO Journal.
Murine T-cell receptor OT-I exhibits imperfect discrimination between foreign and self-antigens
www.embopress.org/doi/full/10....
Murine T-cell receptor OT-I exhibits imperfect discrimination between foreign and self-antigens
www.embopress.org/doi/full/10....
November 27, 2025 at 9:24 AM
Our work accurately measuring the 3D affinity between the OT-I TCR and a large number of foreign and self antigen ligands is now published at EMBO Journal.
Murine T-cell receptor OT-I exhibits imperfect discrimination between foreign and self-antigens
www.embopress.org/doi/full/10....
Murine T-cell receptor OT-I exhibits imperfect discrimination between foreign and self-antigens
www.embopress.org/doi/full/10....
This is one that is unappreciated I would say. I worked in Jeroen's lab for a while.
www.nature.com/articles/ni....
www.nature.com/articles/ni....
Control of T cell antigen reactivity via programmed TCR downregulation - Nature Immunology
Van Heijst and colleagues show that CD4+ T cells are programmed to downregulate TCR expression at the peak of clonal expansion in proportion to the strength of initial antigen recognition.
www.nature.com
October 5, 2024 at 6:36 PM
This is one that is unappreciated I would say. I worked in Jeroen's lab for a while.
www.nature.com/articles/ni....
www.nature.com/articles/ni....
Phase 1 of a hypoimmune allogeneic T cell product, CRISPR deleted TRAC, PD1, HLA-A, HLA-B, CIITA, with a CD19-targeting synthetic TCR and antigen receptor in TRAC locus in 5 patients with severe, refractory #lupus nephritis @naturemedicine.bsky.social www.nature.com/articles/s41...
August 28, 2025 at 12:42 AM
Phase 1 of a hypoimmune allogeneic T cell product, CRISPR deleted TRAC, PD1, HLA-A, HLA-B, CIITA, with a CD19-targeting synthetic TCR and antigen receptor in TRAC locus in 5 patients with severe, refractory #lupus nephritis @naturemedicine.bsky.social www.nature.com/articles/s41...