Evidence map›Paper›PMID 42183380›Full record

ArticleResearch square2026

OpenIMC: an open-source platform for analyzing single-cell and spatial proteomics by imaging mass cytometry.

Dean Tessone, Mohamed Kamal, Valerie Hennes, James Hicks, Peter Kuhn

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in Research square, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

5 authors.

Dean TessoneConvergent Science Institute in Cancer, University of Southern California, Los Angeles, CA, 90089, USA.
Mohamed KamalConvergent Science Institute in Cancer, University of Southern California, Los Angeles, CA, 90089, USA.
Valerie HennesConvergent Science Institute in Cancer, University of Southern California, Los Angeles, CA, 90089, USA.
James HicksConvergent Science Institute in Cancer, University of Southern California, Los Angeles, CA, 90089, USA.
Peter KuhnConvergent Science Institute in Cancer, University of Southern California, Los Angeles, CA, 90089, USA.

Funding

USC/NORRIS COMPREHENSIVE CANCER CENTER (CORE) SUPPORTP30CA014089 · NCI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI Fumito Ito · 1985 to 2026
$181.4M
Multi-modal Liquid Biopsy Early Assessment of Breast Cancer, Pancreatic Cancer, and Multiple MyelomaU01CA285013 · NCI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI KUHN, PETER · 2023 to 2025
$3.4M
NCI NIH HHS P30 CA014089NCI NIH HHS U01 CA285013
6 · The paper itself

Abstract

Imaging Mass Cytometry (IMC) enables spatially resolved single-cell proteomics, but fragmented data analysis tools limit reproducibility. We present OpenIMC, an open-source platform consolidating IMC workflows into a cohesive environment. OpenIMC integrates visualization, preprocessing, segmentation, feature extraction, phenotyping, and spatial analysis. Accessible via graphical and command-line interfaces sharing a backend, the platform ensures consistent execution. Built for scalability and reproducibility, OpenIMC automatically records analytical parameters and enables sharing of complete sessions. Case studies analyzing blood-derived cells and tissue slices validate the software platform by recovering known phenotypes and structural organization. OpenIMC lowers technical barriers, supporting rigorous, scalable single-cell and spatial proteomics.

Indexed as

Batch correctionImage analysisImaging Mass CytometryMultiplexed imagingOpen-source softwareSingle-cell proteomicsSpatial proteomics

Identifiers

PMID42183380
PMCPMC13193099

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.