Evidence map›Paper›PMID 40081336›Full record

ArticleCell genomics2025

Spatial transcriptomics identifies novel Pseudomonas aeruginosa virulence factors.

Hao Zhou, Oscar Negrón, Serena Abbondante, Michaela Marshall, Brandon Jones, Edison Ong, Nicole Chumbler, Christopher Tunkey, Groves Dixon, Haining Lin and 3 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Article
  2. Beyond Resistance Genes:Life (Basel, Switzerland) · 2026
    Review
  3. Novel Approaches for Investigating Host Responses to HIV Infection in Ex Vivo Human Genital Tissues.American journal of reproductive immunology (New York, N.Y. : 1989) · 2026
    Review
  4. Review
  5. 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

13 authors.

Hao ZhouDepartment of Biological Sciences, College of Medicine and Health Sciences, Khalifa University, Abu Dhabi, United Arab Emirates; Moderna, Inc., 325 Binney St., Cambridge, MA 02142, UK.
Oscar NegrónModerna, Inc., 325 Binney St., Cambridge, MA 02142, UK.
Serena AbbondanteDepartment of Ophthalmology, School of Medicine, University of California, Irvine, 843 Health Sciences Rd., Irvine, CA 92697, USA.
Michaela MarshallDepartment of Ophthalmology, School of Medicine, University of California, Irvine, 843 Health Sciences Rd., Irvine, CA 92697, USA.
Brandon JonesModerna, Inc., 325 Binney St., Cambridge, MA 02142, UK.
Edison OngModerna, Inc., 325 Binney St., Cambridge, MA 02142, UK.
Nicole ChumblerModerna, Inc., 325 Binney St., Cambridge, MA 02142, UK.
Christopher TunkeyModerna, Inc., 325 Binney St., Cambridge, MA 02142, UK.
Groves DixonModerna, Inc., 325 Binney St., Cambridge, MA 02142, UK.
Haining LinModerna, Inc., 325 Binney St., Cambridge, MA 02142, UK.
Obadiah PlanteModerna, Inc., 325 Binney St., Cambridge, MA 02142, UK.
Eric PearlmanDepartment of Ophthalmology, School of Medicine, University of California, Irvine, 843 Health Sciences Rd., Irvine, CA 92697, USA. Electronic address: eric.pearlman@uci.edu.
Mihaela GadjevaModerna, Inc., 325 Binney St., Cambridge, MA 02142, UK. Electronic address: mihaelagadjeva@gmail.com.

Funding

Toll Like Receptors in Bacterial KeratitisR01EY014362 · NEI · UNIVERSITY OF CALIFORNIA-IRVINE · PI GEORGE R DUBYAK, Eric Pearlman · 2003 to 2026
$8.7M
NEI NIH HHS R01 EY014362
6 · The paper itself

Abstract

To examine host-pathogen interactions, we leveraged a dual spatial transcriptomics approach that simultaneously captures the expression of Pseudomonas aeruginosa genes alongside the entire host transcriptome using a murine model of ocular infection. This method revealed differential pathogen- and host-specific gene expression patterns in infected corneas, which generated a unified transcriptional map of infection. By integrating these data, we developed a predictive ridge regression model trained on images from infected tissues. The model achieved an R

Indexed as

Pseudomonas aeruginosaPseudomonas InfectionsTranscriptomeVirulence FactorsAnimalsDisease Models, AnimalGene Expression ProfilingHost-Pathogen InteractionsMiceVirulenceVirulence FactorsAI-driven genomic analysisbacterial infectionshost-pathogen interactionsmultiomics integrationocular infectionspathodaptationPseudomonas aeruginosaspatial transcriptomicstarget discoveryvirulence factors

Identifiers

PMID40081336
PMCPMC11960532

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.