Evidence map›Paper›PMID 36521490›Full record

ArticleMolecular cell2023

Macrophage inflammatory and regenerative response periodicity is programmed by cell cycle and chromatin state.

Bence Daniel, Julia A Belk, Stefanie L Meier, Andy Y Chen, Katalin Sandor, Zsolt Czimmerer, Zsofia Varga, Krisztian Bene, Frank A Buquicchio, Yanyan Qi and 7 more

Open access · bronzeAbstract read
In one paragraph

Article in Molecular cell, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.

0numbers the graph read from it
0cells of the map it votes in
35citing papers in PubMed
4.8field-weighted citation impact, top 4% of its field
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

35 citing papers in PubMed, 58 citations in OpenAlex.

  1. Review
  2. Regulation of immune signal integration and memory by inflammation-induced chromosome conformation.Proceedings of the National Academy of Sciences of the United States of America · 2026
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  3. AcutebioRxiv : the preprint server for biology · 2026
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  8. Enhanced antitumor efficacy of combined targeting of adenosine ACancer immunology, immunotherapy : CII · 2026
    Article
  9. Review
  10. Article
  11. Article
  12. Review
  13. Article
  14. A Single Cell Atlas of the Newt Iris During Lens Regeneration.bioRxiv : the preprint server for biology · 2025
    Article
  15. Article
  16. Article
  17. Article
  18. Impact of Black Soldier Fly Larvae Oil on Immunometabolic Processes.International journal of molecular sciences · 2025
    Article
  19. Immunomodulatory Effects ofAntioxidants (Basel, Switzerland) · 2025
    Article
  20. 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

17 authors at 4 institutions in 2 countries.

Bence DanielDepartment of Pathology, Stanford University, Stanford, CA 94305, USA; Center for Personal Dynamic Regulomes, Stanford University, Stanford, CA 94305, USA; Gladstone-UCSF Institute of Genomic Immunology, San Francisco, CA 94158, USA. Electronic address: bdaniel8@stanford.edu.
Julia A BelkDepartment of Pathology, Stanford University, Stanford, CA 94305, USA; Department of Computer Science, Stanford University, Stanford, CA 94305, USA; Gladstone-UCSF Institute of Genomic Immunology, San Francisco, CA 94158, USA.
Stefanie L MeierDepartment of Pathology, Stanford University, Stanford, CA 94305, USA; Parker Institute for Cancer Immunotherapy, San Francisco, CA 94129, USA; Gladstone-UCSF Institute of Genomic Immunology, San Francisco, CA 94158, USA.
Andy Y ChenDepartment of Pathology, Stanford University, Stanford, CA 94305, USA; Department of Bioengineering, Stanford University, Stanford, CA 94305, USA; Gladstone-UCSF Institute of Genomic Immunology, San Francisco, CA 94158, USA.
Katalin SandorDepartment of Pathology, Stanford University, Stanford, CA 94305, USA; Gladstone-UCSF Institute of Genomic Immunology, San Francisco, CA 94158, USA.
Zsolt CzimmererDepartment of Biochemistry and Molecular Biology, University of Debrecen, Debrecen 4032, Hungary; Institute of Genetics, Biological Research Centre, Eötvös Loránd Research Network, Szeged 6726, Hungary.
Zsofia VargaDepartment of Biochemistry and Molecular Biology, University of Debrecen, Debrecen 4032, Hungary.
Krisztian BeneDepartment of Biochemistry and Molecular Biology, University of Debrecen, Debrecen 4032, Hungary.
Frank A BuquicchioDepartment of Pathology, Stanford University, Stanford, CA 94305, USA; Program in Immunology, Stanford University, Stanford, CA, USA; Gladstone-UCSF Institute of Genomic Immunology, San Francisco, CA 94158, USA.
Yanyan QiDepartment of Pathology, Stanford University, Stanford, CA 94305, USA.
Hugo KitanoDepartment of Computer Science, Stanford University, Stanford, CA 94305, USA.
Joshua R WheelerCenter for Personal Dynamic Regulomes, Stanford University, Stanford, CA 94305, USA.
Deshka S FosterHagey Laboratory for Pediatric Regenerative Medicine, Division of Plastic and Reconstructive Surgery, Stanford University, Stanford, CA 94305, USA; Department of Surgery, Stanford University School of Medicine, Stanford, CA 94305, USA.
Michael JanuszykHagey Laboratory for Pediatric Regenerative Medicine, Division of Plastic and Reconstructive Surgery, Stanford University, Stanford, CA 94305, USA; Department of Surgery, Stanford University School of Medicine, Stanford, CA 94305, USA.
Michael T LongakerHagey Laboratory for Pediatric Regenerative Medicine, Division of Plastic and Reconstructive Surgery, Stanford University, Stanford, CA 94305, USA; Department of Surgery, Stanford University School of Medicine, Stanford, CA 94305, USA; Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.
Howard Y ChangCenter for Personal Dynamic Regulomes, Stanford University, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA. Electronic address: howchang@stanford.edu.
Ansuman T SatpathyDepartment of Pathology, Stanford University, Stanford, CA 94305, USA; Parker Institute for Cancer Immunotherapy, San Francisco, CA 94129, USA; Program in Immunology, Stanford University, Stanford, CA, USA; Gladstone-UCSF Institute of Genomic Immunology, San Francisco, CA 94158, USA. Electronic address: satpathy@stanford.edu.
Gladstone Institutes · USStanford University · USUniversity of Debrecen · HUHoward Hughes Medical Institute · US

Funding

Stanford Islet Research CoreP30DK116074 · NIDDK · STANFORD UNIVERSITY · PI Seung K Kim · 2017 to 2026
$19.5M
Special EquipmentP50HG007735 · NHGRI · STANFORD UNIVERSITY · PI CHANG, HOWARD Y · 2014 to 2018
$15.2M
Center for Personal Dynamic RegulomesRM1HG007735 · NHGRI · STANFORD UNIVERSITY · PI CHANG, HOWARD Y · 2019 to 2023
$13.8M
4DN Interrogation of T Cell Exhaustion in CancerU01CA260852 · NCI · STANFORD UNIVERSITY · PI SATPATHY, ANSUMAN · 2020 to 2024
$2.6M
Mechanoresponsive Engrailed-1-negative fibroblasts activate Engrailed-1 to promote fibrosis in wound healingR01GM136659 · NIGMS · STANFORD UNIVERSITY · PI LONGAKER, MICHAEL T · 2020 to 2023
$1.3M
Fibroblast lineage mechanisms of scarless skin healingR01GM116892 · NIGMS · STANFORD UNIVERSITY · PI LONGAKER, MICHAEL T, LORENZ, HERMANN PETER · 2017 to 2020
$1.2M
High Throughput DNA Sequencer UpgradeS10OD018220 · OD · STANFORD UNIVERSITY · PI COLLER, JOHN · 2014 to 2014
$596k
Computer ClusterS10OD021763 · OD · STANFORD UNIVERSITY · PI JI, HANLEE P · 2016 to 2016
$481k
Single cell epigenomics in cancer immunity and immunotherapyK08CA230188 · NCI · STANFORD UNIVERSITY · PI SATPATHY, ANSUMAN · 2018 to 2020
$448k
CANCER ASSOCIATED FIBROBLAST CLONALITY, CHROMATIN ACCESSIBILITY AND THERAPEUTIC TARGETING IN PANCREATIC DUCTAL ADENOCARCINOMA STROMAF32CA239312 · NCI · STANFORD UNIVERSITY · PI FOSTER, DESHKA STONOROV · 2020 to 2020
$53k
Howard Hughes Medical InstituteNCI NIH HHS F32 CA239312NCI NIH HHS K08 CA230188NCI NIH HHS U01 CA260852NHGRI NIH HHS P50 HG007735NHGRI NIH HHS RM1 HG007735NIGMS NIH HHS R01 GM116892NIGMS NIH HHS R01 GM136659NIH HHS S10 OD018220NIH HHS S10 OD021763
6 · The paper itself

Abstract

Cell cycle (CC) facilitates cell division via robust, cyclical gene expression. Protective immunity requires the expansion of pathogen-responsive cell types, but whether CC confers unique gene expression programs that direct the subsequent immunological response remains unclear. Here, we demonstrate that single macrophages (MFs) adopt different plasticity states in CC, which leads to heterogeneous cytokine-induced polarization, priming, and repolarization programs. Specifically, MF plasticity to interferon gamma (IFNG) is substantially reduced during S-G2/M, whereas interleukin 4 (IL-4) induces S-G2/M-biased gene expression, mediated by CC-biased enhancers. Additionally, IL-4 polarization shifts the CC-phase distribution of MFs toward the G2/M phase, providing a subpopulation-specific mechanism for IL-4-induced, dampened IFNG responsiveness. Finally, we demonstrate CC-dependent MF responses in murine and human disease settings in vivo, including Th2-driven airway inflammation and pulmonary fibrosis, where MFs express an S-G2/M-biased tissue remodeling gene program. Therefore, MF inflammatory and regenerative responses are gated by CC in a cyclical, phase-dependent manner.

Indexed as

ChromatinInterleukin-4AnimalsCell CycleCell DivisionHumansInterferon-gammaMacrophagesMiceChromatinInterferon-gammaInterleukin-4cell cyclemacrophage plasticitymacrophage polarizationsingle-cell epigenomics

Identifiers

PMID36521490
PMCPMC9831293
OpenAlexW4311468531

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

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.