Evidence map›Paper›PMID 36064771›Full record

ArticleNature methods2022

A bead-based method for high-throughput mapping of the sequence- and force-dependence of T cell activation.

Yinnian Feng, Xiang Zhao, Adam K White, K Christopher Garcia, Polly M Fordyce

Abstract read
In one paragraph

Article in Nature methods, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.

0numbers the graph read from it
0cells of the map it votes in
19citing 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

19 citing papers in PubMed.

  1. Review
  2. Review
  3. High-throughput discovery of inhibitory protein fragments with AlphaFold.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  4. Review
  5. Article
  6. Article
  7. High-throughput discovery of inhibitory protein fragments with AlphaFold.bioRxiv : the preprint server for biology · 2024
    Article
  8. Journal of proteome research · 2024
    Review
  9. Review
  10. Review
  11. Article
  12. Investigating immunity.Nature methods · 2024
    Article
  13. Defining T cell receptor repertoires using nanovial-based binding and functional screening.Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  14. Review
  15. Review
  16. Harnessing αβ T cell receptor mechanobiology to achieve the promise of immuno-oncology.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Review
  17. Article
  18. Neoantigens: promising targets for cancer therapy.Signal transduction and targeted therapy · 2023
    Review
  19. 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

5 authors.

Yinnian FengDepartment of Genetics, Stanford University, Stanford, CA, USA.
Xiang ZhaoDepartment of Molecular and Cellular Physiology, Stanford University, Stanford, CA, USA.
Adam K WhiteDepartment of Genetics, Stanford University, Stanford, CA, USA.
K Christopher GarciaDepartment of Molecular and Cellular Physiology, Stanford University, Stanford, CA, USA.
Polly M FordyceDepartment of Genetics, Stanford University, Stanford, CA, USA. pfordyce@stanford.edu.ORCID http://orcid.org/0000-0002-9505-0638

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
$88.5M
Structural correlates of T cell receptor signalingR01AI103867 · NIAID · STANFORD UNIVERSITY · PI Kenan Christopher GARCIA · 2014 to 2026
$5.3M
Leveraging spectral encoding for high dimensional biological multiplexingDP2GM123641 · NIGMS · STANFORD UNIVERSITY · PI FORDYCE, POLLY MORRELL · 2016 to 2016
$2.4M
A Novel Platform for Synthesis of Programmable Proteome-Scale Peptide Bead ArraysR01GM107132 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI DORSEY, MORNA J · 2014 to 2018
$1.9M
Howard Hughes Medical InstituteNIAID NIH HHS R01 AI103867NIAID NIH HHS U19 AI057229NIGMS NIH HHS DP2 GM123641NIGMS NIH HHS R01 GM107132
6 · The paper itself

Abstract

Adaptive immunity relies on T lymphocytes that use αβ T cell receptors (TCRs) to discriminate among peptides presented by major histocompatibility complex molecules (pMHCs). Identifying pMHCs capable of inducing robust T cell responses will not only enable a deeper understanding of the mechanisms governing immune responses but could also have broad applications in diagnosis and treatment. T cell recognition of sparse antigenic pMHCs in vivo relies on biomechanical forces. However, in vitro screening methods test potential pMHCs without force and often at high (nonphysiological) pMHC densities and thus fail to predict potent agonists in vivo. Here, we present a technology termed BATTLES (biomechanically assisted T cell triggering for large-scale exogenous-pMHC screening) that uses biomechanical force to initiate T cell triggering for peptides and cells in parallel. BATTLES displays candidate pMHCs on spectrally encoded beads composed of a thermo-responsive polymer capable of applying shear loads to T cells, facilitating exploration of the force- and sequence-dependent landscape of T cell responses. BATTLES can be used to explore basic T cell mechanobiology and T cell-based immunotherapies.

Indexed as

Lymphocyte ActivationReceptors, Antigen, T-CellPeptidesPolymersT-LymphocytesPeptidesPolymersReceptors, Antigen, T-Cell

Identifiers

PMID36064771
PMCPMC13091673

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

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.