ArticleImmunity2021
Global analysis of shared T cell specificities in human non-small cell lung cancer enables HLA inference and antigen discovery.
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Article in Immunity, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 94 papers.
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94citing papers in PubMed
8.8field-weighted citation impact, top 1% of its field
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Who cites it
94 citing papers in PubMed, 132 citations in OpenAlex.
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- Shared CD4+ T cell receptor specificity groups in Crohn's disease and ulcerative colitis.JCI insight · 2026Article
- High TMEM161A expression drives malignant phenotypes and predicts poor prognosis in colorectal cancer.iScience · 2026Article
- Unbiased avidity-based isolation of antigen-specific T cells.Journal for immunotherapy of cancer · 2026Article
- Cross-reactive tissue-resident memory T lymphocytes-concepts, evidence, and open questions.Journal of translational medicine · 2026Review
- Enteroviral epitope mimicry enables NK cell-mediated targeting of ASPH in hepatocellular carcinoma.bioRxiv : the preprint server for biology · 2026Article
- PD-L1-Binding Antigen Presenters: Redirecting Vaccine-Induced Antibodies for Cancer Immunotherapy.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Investigating Early Kinetics in Plasma ctDNA and Peripheral T-cell Receptor Repertoire to Predict Treatment Outcomes to PD-1 Inhibitors in Head and Neck Squamous Cell Carcinoma.Clinical cancer research : an official journal of the American Association for Cancer Research · 2026Article
- De novo identification of the specificities of recurrently identified human T cell receptors.Science advances · 2026Article
- A Decade-Old Atlas of TMEM (Transmembrane) Protein Family in Lung Cancer: Lessons Learnt and Future Directions.International journal of molecular sciences · 2026Review
- Methylation of DPP9 regulates immune surveillance in non-small cell lung cancer by promoting macrophage ferroptosis via WWP2 ubiquitination.American journal of cancer research · 2026Article
- Quantitative evaluation of T-cell repertoire restoration following hematopoietic stem cell transplantation in patients with and without graft versus host disease.Frontiers in immunology · 2026Article
- Large-Scale T-cell Receptor Repertoire Profiling Unveils Tumor-Specific Signals for Diagnosing Indeterminate Pulmonary Nodules.Cancer research · 2025Article
- Molecular and System-Level Characterization of MMP12 Suppression in Lung Cancer: A Combined Bioinformatics and Molecular Approach.International journal of molecular sciences · 2025Article
- T-cell Receptor Profiling of Blood to Detect Lung Cancer.Cancer immunology research · 2025Article
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- The spatial landscape of glial pathology and T cell response in Parkinson's disease substantia nigra.Nature communications · 2025Article
- The role of reactive enteric glia-macrophage interactions in acute and chronic inflammation.Neurogastroenterology and motility · 2025Review
34 more citing papers are in PubMed but not listed here.
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Authors and funding
40 authors at 7 institutions in 1 country.
Shin-Heng ChiouInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA 94305, USA.
Diane TsengDepartment of Medicine, Division of Oncology, Stanford University, Stanford, CA 94305, USA.
Alexandre ReubenDepartment of Thoracic Head and Neck Medical Oncology, Division of Cancer Medicine, MD Anderson Cancer Center, Houston, TX 77030, USA.
Vamsee MallajosyulaInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA 94305, USA.
Irene S MolinaRutgers Cancer Institute of New Jersey, Robert Wood Johnson Medical School, Rutgers, The State University of New Jersey, New Brunswick, NJ 08901, USA.
Stephanie ConleyInstitute for Stem Cell Biology and Regenerative Medicine Institute, Stanford University, Stanford, CA 94305, USA.
Julie WilhelmyStanford Genome Technology Center, Stanford University, Stanford, CA 94305, USA.
Alana M McSweenInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA 94305, USA.
Xinbo YangDepartment of Molecular and Cellular Physiology and Structural Biology, Stanford University, Stanford, CA 94305, USA.
Daisuke NishimiyaDepartment of Molecular and Cellular Physiology and Structural Biology, Stanford University, Stanford, CA 94305, USA.
Rahul SinhaInstitute for Stem Cell Biology and Regenerative Medicine Institute, Stanford University, Stanford, CA 94305, USA.
Barzin Y NabetDepartment of Radiation Oncology, Stanford University, Stanford, CA 94305, USA.
Chunlin WangInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA 94305, USA.
Joseph B ShragerDepartment of Cardiothoracic Surgery - Thoracic Surgery, Stanford University, Stanford, CA 94305, USA; Stanford Cancer Institute, Stanford, CA 94305, USA.
Mark F BerryDepartment of Cardiothoracic Surgery - Thoracic Surgery, Stanford University, Stanford, CA 94305, USA.
Leah BackhusDepartment of Cardiothoracic Surgery - Thoracic Surgery, Stanford University, Stanford, CA 94305, USA; Stanford Cancer Institute, Stanford, CA 94305, USA.
Natalie S LuiDepartment of Cardiothoracic Surgery - Thoracic Surgery, Stanford University, Stanford, CA 94305, USA; Stanford Cancer Institute, Stanford, CA 94305, USA.
Heather A WakeleeDepartment of Medicine, Division of Oncology, Stanford University, Stanford, CA 94305, USA; Stanford Cancer Institute, Stanford, CA 94305, USA.
Joel W NealDepartment of Medicine, Division of Oncology, Stanford University, Stanford, CA 94305, USA; Stanford Cancer Institute, Stanford, CA 94305, USA.
Sukhmani K PaddaDepartment of Medicine, Division of Oncology, Stanford University, Stanford, CA 94305, USA.
Gerald J BerryDepartment of Pathology, Stanford University, Stanford, CA 94305, USA.
Alberto DelaidelliDepartment of Molecular Oncology, British Columbia Cancer Research Centre, Vancouver, BC V5Z 1L3, Canada.
Poul H SorensenDepartment of Molecular Oncology, British Columbia Cancer Research Centre, Vancouver, BC V5Z 1L3, Canada.
Elena SotilloCenter for Cancer Cell Therapy, Stanford Cancer Institute, Stanford University, Stanford, CA 94305, USA.
Patrick TranCenter for Cancer Cell Therapy, Stanford Cancer Institute, Stanford University, Stanford, CA 94305, USA.
Jalen A BensonDepartment of Cardiothoracic Surgery - Thoracic Surgery, Stanford University, Stanford, CA 94305, USA.
Rebecca RichardsCenter for Cancer Cell Therapy, Stanford Cancer Institute, Stanford University, Stanford, CA 94305, USA; Department of Pediatrics, Stanford University, Stanford, CA 94305, USA.
Louai LabaniehCenter for Cancer Cell Therapy, Stanford Cancer Institute, Stanford University, Stanford, CA 94305, USA; Department of Bioengineering, Stanford University, Stanford, CA 94305, USA.
Dorota D KlyszCenter for Cancer Cell Therapy, Stanford Cancer Institute, Stanford University, Stanford, CA 94305, USA.
David M LouisInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA 94305, USA.
Steven A FeldmanCenter for Cancer Cell Therapy, Stanford Cancer Institute, Stanford University, Stanford, CA 94305, USA.
Maximilian DiehnInstitute for Stem Cell Biology and Regenerative Medicine Institute, Stanford University, Stanford, CA 94305, USA; Department of Radiation Oncology, Stanford University, Stanford, CA 94305, USA; Stanford Cancer Institute, Stanford, CA 94305, USA.
Irving L WeissmanInstitute for Stem Cell Biology and Regenerative Medicine Institute, Stanford University, Stanford, CA 94305, USA.
Jianjun ZhangDepartment of Thoracic Head and Neck Medical Oncology, Division of Cancer Medicine, MD Anderson Cancer Center, Houston, TX 77030, USA; Department of Genomic Medicine, Division of Cancer Medicine, MD Anderson Cancer Center, Houston, TX 77030, USA.
Ignacio I WistubaDepartment of Translational Molecular Pathology, Division of Pathology and Laboratory Medicine, MD Anderson Cancer Center, Houston, TX 77030, USA.
P Andrew FutrealDepartment of Genomic Medicine, Division of Cancer Medicine, MD Anderson Cancer Center, Houston, TX 77030, USA.
John V HeymachDepartment of Thoracic Head and Neck Medical Oncology, Division of Cancer Medicine, MD Anderson Cancer Center, Houston, TX 77030, USA.
K Christopher GarciaDepartment of Molecular and Cellular Physiology and Structural Biology, Stanford University, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA.
Crystal L MackallCenter for Cancer Cell Therapy, Stanford Cancer Institute, Stanford University, Stanford, CA 94305, USA; Department of Pediatrics, Stanford University, Stanford, CA 94305, USA; Department of Medicine, Stanford University, Stanford, CA 94305, USA.
Mark M DavisInstitute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA; Department of Microbiology and Immunology, Stanford University, Stanford, CA 94305, USA. Electronic address: mmdavis@stanford.edu.
Stanford University · USThe University of Texas MD Anderson Cancer Center · USCancer Prevention Institute of California · USCalifornia Institute for Regenerative Medicine · USHoward Hughes Medical Institute · USRutgers, The State University of New Jersey · USStanford Cancer Institute
Funding
Using a tonsil organoid system to probe conditions for the induction of protective antibody and T cell responses to influenza.U19AI057229 · NIAID · STANFORD UNIVERSITY · PI Mark Morris Davis · 2003 to 2026
$88.5MTranslational Oncology Research Program (Project-005)P30CA124435 · NCI · STANFORD UNIVERSITY · PI LAURA D ATTARDI · 2007 to 2026
$71.4MUNIVERSITY OF TEXAS--SPORE IN LUNG CANCERP50CA070907 · NCI · UT SOUTHWESTERN MEDICAL CENTER · PI HEYMACH, JOHN V. · 1996 to 2024
$57.4MUnderstanding and Overcoming Resistance to Immunotherapies in Childhood CancersU54CA232568 · NCI · CHILDREN'S HOSP OF PHILADELPHIA · PI MACKALL, CRYSTAL, MARIS, JOHN M · 2018 to 2022
$13.1MStructural correlates of T cell receptor signalingR01AI103867 · NIAID · STANFORD UNIVERSITY · PI Kenan Christopher GARCIA · 2014 to 2026
$5.3MThe molecular and immune evolution in the progression of lung neoplasia to invasive adenocarcinomaR01CA234629 · NCI · UNIVERSITY OF TX MD ANDERSON CAN CTR · PI ZHANG, JIANJUN · 2019 to 2023
$1.8MFluorescence Activated Cell SorterS10RR025468 · NCRR · UNIV OF MED/DENT NJ-R W JOHNSON MED SCH · PI LATTIME, EDMUND C. · 2009 to 2009
$500kFour Laser, 18 Color Cell Sorter in the SSFFS10RR025518 · NCRR · STANFORD UNIVERSITY · PI HERZENBERG, LEONARD A · 2009 to 2009
$500kBD Canto II RUO CytometerS10RR027431 · NCRR · STANFORD UNIVERSITY · PI NOLAN, GARRY P · 2010 to 2010
$236kNCI NIH HHS P30 CA124435NCI NIH HHS P50 CA070907NCI NIH HHS R01 CA234629NCI NIH HHS U54 CA232568NCRR NIH HHS S10 RR025468NCRR NIH HHS S10 RR025518NCRR NIH HHS S10 RR027431NIAID NIH HHS R01 AI103867NIAID NIH HHS U19 AI057229
Abstract
To identify disease-relevant T cell receptors (TCRs) with shared antigen specificity, we analyzed 778,938 TCRβ chain sequences from 178 non-small cell lung cancer patients using the GLIPH2 (grouping of lymphocyte interactions with paratope hotspots 2) algorithm. We identified over 66,000 shared specificity groups, of which 435 were clonally expanded and enriched in tumors compared to adjacent lung. The antigenic epitopes of one such tumor-enriched specificity group were identified using a yeast peptide-HLA A
Indexed as
AlgorithmsAntigen PresentationAntigens, NeoplasmCarcinoma, Non-Small-Cell LungCells, CulturedCross ReactionsEpitope MappingEpitopes, T-LymphocyteHLA-A2 AntigenHumansLung NeoplasmsProtein BindingReceptors, Antigen, T-Cell, alpha-betaT-Cell Antigen Receptor SpecificityT-LymphocytesAntigens, NeoplasmEpitopes, T-LymphocyteHLA-A*02:01 antigenHLA-A2 AntigenReceptors, Antigen, T-Cell, alpha-betacancercross-reactivityEBVEntSGLIPH2LMP2ANSCLCT cell receptor repertoireT cell specificityTCRTMEM161Atumor-infiltrating lymphocyte
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