Evidence map›Paper›PMID 41030449›Full record

ArticleFrontiers in immunology2025

Spatial transcriptomics reveals distinct role of monocytes/macrophages with high

Yan Chen Wongworawat, Chirag Nepal, Mark Duhon, Wanqiu Chen, Minh-Tri Nguyen, Adam Godzik, Xinru Qiu, Wei Vivian Li, Gary Yu, Rafael Villicana and 5 more

Abstract read
In one paragraph

Article in Frontiers in immunology, 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. Article
  4. Review
  5. Cystinosis and Cellular Energy Failure: Mitochondria at the Crossroads.International journal of molecular sciences · 2026
    Review
  6. Review
  7. Article
  8. Multi-Omics Integration IdentifiesInternational journal of molecular sciences · 2025
    Article
  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

15 authors.

Yan Chen WongworawatDepartment of Pathology and Human Anatomy, Loma Linda University Health, Loma Linda, CA, United States.
Chirag NepalCenter for Genomics, School of Medicine, Loma Linda University, Loma Linda, CA, United States.
Mark DuhonTechnology Center for Genomics & Bioinformatics, Pathology & Laboratory Medicine, University of California, Los Angeles, Los Angeles, CA, United States.
Wanqiu ChenCenter for Genomics, School of Medicine, Loma Linda University, Loma Linda, CA, United States.
Minh-Tri NguyenTransplant Institute, Loma Linda University Health, Loma Linda, CA, United States.
Adam GodzikDivision of Biomedical Sciences, University of California Riverside School of Medicine, Riverside, CA, United States.
Xinru QiuDivision of Biomedical Sciences, University of California Riverside School of Medicine, Riverside, CA, United States.
Wei Vivian LiDepartment of Statistics, University of California, Riverside, Riverside, CA, United States.
Gary YuMailman School of Public Health, Columbia University, New York, NY, United States.
Rafael VillicanaTransplant Institute, Loma Linda University Health, Loma Linda, CA, United States.
Craig ZuppanDepartment of Pathology and Human Anatomy, Loma Linda University Health, Loma Linda, CA, United States.
Michael De VeraTransplant Institute, Loma Linda University Health, Loma Linda, CA, United States.
Michael T EadonDivisions of Nephrology and Clinical Pharmacology, Indiana University, Indianapolis, IN, Los Angeles, CA, United States.
Mark HaasPathology and Laboratory Medicine, Cedars-Sinai Medical Center, Los Angeles, CA, United States.
Charles WangCenter for Genomics, School of Medicine, Loma Linda University, Loma Linda, CA, United States.

Funding

Resource Development CoreU54DK137328 · NIDDK · INDIANA UNIVERSITY INDIANAPOLIS · PI KENNETH W DUNN · 2023 to 2026
$4.5M
Genomic and Epigenomic Mechanisms of Maternal E-Cigarette induced Abnormal Brain DevelopmentU01DA058278 · NIDA · LOMA LINDA UNIVERSITY · PI Charles Wang, DALIAO XIAO · 2023 to 2026
$4.4M
NIDA NIH HHS U01 DA058278NIDDK NIH HHS U54 DK137328
6 · The paper itself

Abstract

Introduction: Kidney transplant rejections are classified as active antibody mediated rejection (AMR) and cell mediated rejection (TCMR), with AMR primarily driven by antibodies produced by B cells, whereas TCMR is mediated by T lymphocytes that orchestrate cellular immune responses against the graft. Emerging evidence highlights the essential roles of innate immune cells in rejections, especially monocytes/macrophages and natural killer (NK) cells. However, the roles of specific innate immune cell subpopulations in kidney allograft rejection remain incompletely understood. Methods: We performed the spatial transcriptomics using the formalin-fixed paraffin-embedded (FFPE) core needle biopsies from human kidney allografts. Results: We demonstrated that non-rejection, AMR, acute TCMR and chronic active AMR have distinct transcriptomic features. Subclusters of monocytes/macrophages with high Discussion: Taking together, these findings revealed that intragraft monocytes/macrophages with high

Indexed as

Graft RejectionKidney TransplantationMacrophagesMonocytesReceptors, IgGTranscriptomeAdultFemaleGene Expression ProfilingHumansImmunity, InnateMaleMiddle AgedFCGR3A protein, humanReceptors, IgGcell mediated rejectionFc gamma receptor IIIA (FCGR3A)innate immunitykidney allograft antibody mediated rejectionmacrophagesmonocytesspatial transcriptomictrained immunity

Identifiers

PMID41030449
PMCPMC12477047

What Socratic holds

Textmetadata
LicenceCC BY
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 Socratic graph.