Evidence map›Paper›PMID 39879318›Full record

ArticleScience translational medicine2025

Prior vaccination prevents overactivation of innate immune responses during COVID-19 breakthrough infection.

Leslie Chan, Kassandra Pinedo, Mikayla A Stabile, Rebecca E Hamlin, Shaun M Pienkos, Kalani Ratnasiri, Stanford COVID-19 Biobank, Samuel Yang, Andra L Blomkalns, Kari C Nadeau and 5 more

Abstract read
In one paragraph

Article in Science translational medicine, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing 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

12 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
  4. Article
  5. Article
  6. Article
  7. Review
  8. Acute SARS-CoV-2 infection.Nature reviews. Disease primers · 2025
    Review
  9. Article
  10. Article
  11. Article
  12. Review
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.

Leslie ChanStanford Immunology Program, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0002-5064-140X
Kassandra PinedoDepartment of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0009-0008-5356-6813
Mikayla A StabileDepartment of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.
Rebecca E HamlinDepartment of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0001-7336-6028
Shaun M PienkosDepartment of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0009-0001-8409-4803
Kalani RatnasiriStanford Immunology Program, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0001-5953-0004
Stanford COVID-19 Biobank
Samuel YangDepartment of Emergency Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0003-1123-9036
Andra L BlomkalnsDepartment of Emergency Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0001-5760-6351
Kari C NadeauDepartment of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0002-2146-2955
Bali PulendranInstitute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0001-6517-4333
Ruth O'HaraDepartment of Psychiatry and Behavioral Sciences, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0001-6583-4995
Angela J RogersDepartment of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0001-6969-6200
Susan P HolmesDepartment of Statistics, Stanford University, Stanford, CA 94305, USA.ORCID 0000-0002-2208-8168
Catherine A BlishDepartment of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0001-6946-7627

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
MOLECULAR &CELLULAR IMMUNOBIOLOGYT32AI007290 · NIAID · STANFORD UNIVERSITY · PI Sean Curtis Bendall, Olivia M Martinez · 1985 to 2026
$27.0M
Systems biological assessment of T cell responses to vaccinationU19AI167903 · NIAID · STANFORD UNIVERSITY · PI BALI PULENDRAN · 2022 to 2026
$13.2M
EMERGING INFECTIOUS DISEASEST32AI007502 · NIAID · STANFORD UNIVERSITY · PI Prasanna Jagannathan, DAVID A. RELMAN · 1995 to 2026
$6.8M
Stanford Training Program in Lung BiologyT32HL129970 · NHLBI · STANFORD UNIVERSITY · PI CORNFIELD, DAVID N., NICOLLS, MARK ROBERT · 2016 to 2025
$3.2M
Defining factors affecting natural killer cells' antibody-dependent responses in COVID-19F31AI179125 · NIAID · STANFORD UNIVERSITY · PI CHAN, LESLIE · 2024 to 2025
$85k
NHLBI NIH HHS L40 HL124663NHLBI NIH HHS T32 HL129970NIAID NIH HHS F31 AI179125NIAID NIH HHS T32 AI007290NIAID NIH HHS T32 AI007502NIAID NIH HHS U19 AI057229NIAID NIH HHS U19 AI167903
6 · The paper itself

Abstract

At this stage in the COVID-19 pandemic, most infections are "breakthrough" infections that occur in individuals with prior severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) exposure. To refine long-term vaccine strategies against emerging variants, we examined both innate and adaptive immunity in breakthrough infections. We performed single-cell transcriptomic, proteomic, and functional profiling of primary and breakthrough infections to compare immune responses from unvaccinated and vaccinated individuals during the SARS-CoV-2 Delta wave. Breakthrough infections were characterized by a less activated transcriptomic profile in monocytes and natural killer cells, with induction of pathways limiting monocyte migratory potential and natural killer cell proliferation. Furthermore, we observed a female-specific increase in transcriptomic and proteomic activation of multiple innate immune cell subsets during breakthrough infections. These insights suggest that prior SARS-CoV-2 vaccination prevents overactivation of innate immune responses during breakthrough infections with discernible sex-specific patterns and underscore the potential of harnessing vaccines in mitigating pathologic immune responses resulting from overactivation.

Indexed as

COVID-19COVID-19 VaccinesImmunity, InnateSARS-CoV-2VaccinationAdaptive ImmunityAdultBreakthrough InfectionsFemaleHumansKiller Cells, NaturalMaleMiddle AgedMonocytesProteomicsTranscriptomeCOVID-19 Vaccines

Identifiers

PMID39879318
PMCPMC12142493

What OpenQuestion holds

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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.