Evidence map›Paper›PMID 40341231›Full record

ArticleNature cancer2025

Impaired T cell and neoantigen retention in time-serial analysis of metastatic non-small cell lung cancer in patients unresponsive to TIL cell therapy.

Chao Wang, Xiaoqing Yu, Jamie K Teer, Jiqiang Yao, Dongliang Du, Xiaoxian Liu, Zachary J Thompson, Min Hsuan Wang, Eric A Welsh, Danish Memon and 17 more

Abstract read
In one paragraph

Article in Nature cancer, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

9 citing papers in PubMed.

  1. Article
  2. Review
  3. Molecular origin, discovery, validation and application of neoantigens.Asian journal of pharmaceutical sciences · 2026
    Review
  4. Review
  5. Article
  6. Article
  7. Article
  8. Review
  9. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

27 authors.

Chao WangDepartment of Immunology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA. chao.wang@moffitt.org.ORCID http://orcid.org/0000-0001-7722-1782
Xiaoqing YuDepartment of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Jamie K TeerDepartment of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.ORCID http://orcid.org/0000-0003-4513-0282
Jiqiang YaoDepartment of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Dongliang DuDepartment of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Xiaoxian LiuDepartment of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.ORCID http://orcid.org/0000-0001-6386-1527
Zachary J ThompsonDepartment of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Min Hsuan WangDepartment of Immunology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Eric A WelshDepartment of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Danish MemonCancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK.
Timothy A ChanCenter for Immunotherapy and Precision Immuno-oncology, Cleveland Clinic Lerner Research Institute, Cleveland, OH, USA.ORCID http://orcid.org/0000-0002-9265-0283
Vladimir MakarovCenter for Immunotherapy and Precision Immuno-oncology, Cleveland Clinic Lerner Research Institute, Cleveland, OH, USA.ORCID http://orcid.org/0000-0002-4104-5876
Carmen M AnadonDepartment of Immunology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.ORCID http://orcid.org/0000-0002-8851-4545
Lamees SaeedDepartment of Anatomic Pathology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Theresa A BoyleDepartment of Anatomic Pathology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.ORCID http://orcid.org/0000-0001-5950-3970
Bin FangProteomics & Metabolomics Core Facility, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.ORCID http://orcid.org/0000-0002-7636-1318
John M KoomenMolecular Oncology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.ORCID http://orcid.org/0000-0002-3818-1762
Cheryl CoxImmune and Cellular Therapy Program, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Ana M LandinImmune and Cellular Therapy Program, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Sean J YoderMolecular Genomics Core Facility, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Sungjune KimDepartment of Immunology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Dung-Tsa ChenDepartment of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.ORCID http://orcid.org/0000-0001-5026-415X
Shari A Pilon-ThomasDepartment of Immunology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Jose R Conejo-GarciaDepartment of Immunology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.ORCID http://orcid.org/0000-0001-6431-4074
Scott J AntoniaDuke Cancer Institute, Duke University School of Medicine, Durham, NC, USA.
Eric B HauraDepartment of Thoracic Oncology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA.
Benjamin C CreelanDepartment of Immunology, H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL, USA. ben.creelan@moffitt.org.ORCID http://orcid.org/0000-0002-2728-8070

Funding

TRANSLATIONAL RESEARCHP30CA076292 · NCI · UNIVERSITY OF SOUTH FLORIDA · PI Christine O'Connell · 1998 to 2026
$93.5M
Imaging Acidosis and Immune Therapy in PDACR01CA239219 · NCI · H. LEE MOFFITT CANCER CTR & RES INST · PI IBRAHIM HASHIM, ARIG A, PILON-THOMAS, SHARI · 2020 to 2024
$3.4M
Predict radiation-induced shifts in patient-specific tumor immune ecosystem composition to harness immunological consequences of radiotherapyU01CA244100 · NCI · UNIVERSITY OF TX MD ANDERSON CAN CTR · PI ENDERLING, HEIKO, PILON-THOMAS, SHARI · 2020 to 2025
$2.6M
Mathematical Model-Guided Adoptive Immunotherapy in Bladder CancerR01CA259387 · NCI · H. LEE MOFFITT CANCER CTR & RES INST · PI PILON-THOMAS, SHARI, REJNIAK, KATARZYNA ANNA · 2021 to 2025
$2.3M
Immunogenomics platform for the analysis of cancerR50CA293821 · NCI · CLEVELAND CLINIC LERNER COM-CWRU · PI Vladimir Makarov · 2024 to 2026
$638k
A low-cost topical immunotherapy formulation suitable for treating cervical cancer in low and middle income countries and low-resource settings in the U.S.R43CA257552 · NCI · MORPHOGENESIS, INC. · PI SHAMBLOTT, MICHAEL J · 2021 to 2021
$400k
American Institute for Cancer Research (American Institute for Cancer Research, Inc.) CRI3675EIF | Stand Up To Cancer (SU2C) SU2C-AACR-CT04-17NCI NIH HHS P30 CA076292NCI NIH HHS R01 CA239219NCI NIH HHS R01 CA259387NCI NIH HHS R43 CA257552NCI NIH HHS R50 CA293821NCI NIH HHS U01 CA244100U.S. Department of Health & Human Services | NIH | National Cancer Institute (NCI) P30-CA076292
6 · The paper itself

Abstract

Cell therapy with tumor-infiltrating lymphocytes (TILs) has yielded durable responses for multiple cancer types, but the causes of therapeutic resistance remain largely unknown. Here multidimensional analysis was performed on time-serial tumor and blood in a lung cancer TIL therapy trial. Using T cell receptor sequencing on both functionally expanded T cells and neoantigen-loaded tetramer-sorted T cells, we identified tumor antigen-specific T cell receptors. We then mapped clones into individual transcriptomes and found that tumor-reactive clonotypes expressed a dysfunctional program and lacked stem-like features among patients who lacked clinical benefit. Tracking tumor-reactive clonotypes over time, decay of antigen-reactive peripheral T cell clonotypes was associated with the emergence of progressive disease. Further, subclonal neoantigens previously targeted by infused T cells were subsequently absent within tumors at progression, suggesting potential adaptive resistance. Our findings suggest that targeting clonal antigens and circumventing dysfunctional states may be important for conferring clinical responses to TIL therapy.

Indexed as

Antigens, NeoplasmCarcinoma, Non-Small-Cell LungImmunotherapy, AdoptiveLung NeoplasmsLymphocytes, Tumor-InfiltratingT-LymphocytesFemaleHumansMaleReceptors, Antigen, T-CellAntigens, NeoplasmReceptors, Antigen, T-Cell

Identifiers

PMID40341231
PMCPMC12987398

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.