Evidence map›Paper›PMID 37275883›Full record

ArticleFrontiers in immunology2023

Single cell transcriptomics of bone marrow derived macrophages reveals Ccl5 as a biomarker of direct IFNAR-independent responses to DNA sensing.

Emily McCarty, Justin Yu, Van K Ninh, David M Calcagno, Jodi Lee, Kevin R King

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Frontiers in immunology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.3field-weighted citation impact, top 35% 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

3 citing papers in PubMed, 2 citations in OpenAlex.

  1. Review
  2. Article
  3. 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

6 authors at 2 institutions in 1 country.

Emily McCartyDepartment of Bioengineering, Jacobs School of Engineering, University of California San Diego, La Jolla, CA, United States.
Justin YuDepartment of Bioengineering, Jacobs School of Engineering, University of California San Diego, La Jolla, CA, United States.
Van K NinhDepartment of Bioengineering, Jacobs School of Engineering, University of California San Diego, La Jolla, CA, United States.
David M CalcagnoDepartment of Bioengineering, Jacobs School of Engineering, University of California San Diego, La Jolla, CA, United States.
Jodi LeeDepartment of Bioengineering, Jacobs School of Engineering, University of California San Diego, La Jolla, CA, United States.
Kevin R KingDepartment of Bioengineering, Jacobs School of Engineering, University of California San Diego, La Jolla, CA, United States.
Jacobs (United States) · USUniversity of California San Diego · US

Funding

Training In Cardiovascular Physiology & PharmacologyT32HL007444 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Ju Chen, Robert Scott Ross · 1985 to 2026
$11.1M
Integrative Bioengineering of Heart, Vessels, and BloodT32HL105373 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI CHIEN, SHU, INTAGLIETTA, MARCOS · 2010 to 2019
$3.6M
Elucidating Cell Communication Networks during Tissue Inflammation, Fibrosis, and RegenerationDP2AR075321 · NIAMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI KING, KEVIN R · 2018 to 2018
$2.4M
Danger Signaling and Spread of Injury after Myocardial InfarctionR00HL129168 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI KING, KEVIN R · 2017 to 2019
$746k
Illumina NovaSeq 6000 Sequencing SystemS10OD026929 · OD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI JEPSEN, KRISTEN LYNN · 2019 to 2019
$600k
NHLBI NIH HHS R00 HL129168NHLBI NIH HHS T32 HL007444NHLBI NIH HHS T32 HL105373NIAMS NIH HHS DP2 AR075321NIH HHS S10 OD026929
6 · The paper itself

Abstract

Introduction: The type I interferon (IFN) response is an innate immune program that mediates anti-viral, anti-cancer, auto-immune, auto-inflammatory, and sterile injury responses. Bone marrow derived macrophages (BMDMs) are commonly used to model macrophage type I IFN responses, but the use of bulk measurement techniques obscures underlying cellular heterogeneity. This is particularly important for the IFN response to immune stimulatory double-stranded DNA (dsDNA) because it elicits overlapping direct and indirect responses, the latter of which depend on type I IFN cytokines signaling Methods: Here, we use single cell RNA-Seq to examine BMDM heterogeneity at steady state and after immune-stimulatory DNA stimulation, with or without IFNAR-dependent amplification. Results: We find that many macrophages express ISGs after DNA stimulation. We also find that a subset of macrophages express ISGs even if IFNAR is inhibited, suggesting that they are direct responders. Analysis of this subset reveals Discussion: Our studies provide a method for studying direct responders to IFN-inducing stimuli and demonstrate the importance of characterizing BMDM models of innate immune responses with single cell resolution.

Indexed as

Interferon Type ITranscriptomeAnimalsBiomarkersDNAInterferon-alphaMacrophagesMiceBiomarkersDNAInterferon-alphaInterferon Type ICcl5dsDNAIfnarinterferon stimulated genesIrf3macrophagessingle cell RNA-Seqtranscriptomics

Identifiers

PMID37275883
PMCPMC10232813
OpenAlexW4377023833

What OpenQuestion 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 OpenQuestion graph.