Evidence map›Paper›PMID 41535547›Full record

ReviewExperimental & molecular medicine2026

Computational frameworks for enhanced extracellular vesicle biomarker discovery.

Jina Kim, Ju Dong Yang, Vatche G Agopian, Yazhen Zhu, Hsian-Rong Tseng, Sungyong You

Abstract readReview
In one paragraph

Review in Experimental & molecular medicine, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing 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

8 citing papers in PubMed.

  1. Review
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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.

Jina KimDepartment of Urology, Cedars-Sinai Medical Center, Los Angeles, CA, USA.
Ju Dong YangSamuel Oschin Comprehensive Cancer Institute, Cedars-Sinai Medical Center, Los Angeles, CA, USA.
Vatche G AgopianDepartment of Surgery, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, USA.
Yazhen ZhuJonsson Comprehensive Cancer Center, University of California, Los Angeles, Los Angeles, CA, USA.
Hsian-Rong TsengJonsson Comprehensive Cancer Center, University of California, Los Angeles, Los Angeles, CA, USA.
Sungyong YouDepartment of Urology, Cedars-Sinai Medical Center, Los Angeles, CA, USA. Sungyong.You@cshs.org.ORCID http://orcid.org/0000-0003-3513-1783

Funding

The Role of the Y Chromosome in Bladder Tumor Development, Growth And ProgressionP01CA278732 · NCI · CEDARS-SINAI MEDICAL CENTER · PI Xue Sean Li · 2023 to 2026
$10.7M
HCC EV Digital Scoring Assay for assessing treatment response in HCC patientsR01CA253651 · NCI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI TSENG, HSIAN-RONG, ZHU, YAZHEN · 2020 to 2024
$3.3M
Extracellular Vesicle-Based Digital Scoring Assay for Detecting Early-stage Hepatocellular CarcinomaR01CA255727 · NCI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI ZHU, YAZHEN · 2021 to 2025
$3.2M
Integrated analysis of HCC CTCs for Liver Transplant Candidate SelectionR01CA246304 · NCI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI AGOPIAN, VATCHE, TSENG, HSIAN-RONG · 2020 to 2024
$2.8M
Click Chemistry-Mediated Surface Protein Assay for Quantifying Subpopulations of Hepatocellular Carcinoma-associated Extracellular VesiclesR01CA277530 · NCI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI Vatche Agopian, HSIAN-RONG TSENG · 2023 to 2026
$2.6M
Cedars-Sinai Medical Center (Cedars-Sinai) 2024 Program Project Grant (PPG) Team Science AwardFoundation for the National Institutes of Health (Foundation for the National Institutes of Health, Inc.) P01CA278732Foundation for the National Institutes of Health (Foundation for the National Institutes of Health, Inc.) R01CA246304Foundation for the National Institutes of Health (Foundation for the National Institutes of Health, Inc.) R01CA253651Foundation for the National Institutes of Health (Foundation for the National Institutes of Health, Inc.) R01CA253651-04S1Foundation for the National Institutes of Health (Foundation for the National Institutes of Health, Inc.) R01CA255727Foundation for the National Institutes of Health (Foundation for the National Institutes of Health, Inc.) R01CA277530NCI NIH HHS P01 CA278732NCI NIH HHS R01 CA246304NCI NIH HHS R01 CA253651NCI NIH HHS R01 CA255727NCI NIH HHS R01 CA277530
6 · The paper itself

Abstract

Extracellular vesicles (EVs) are emerging as promising noninvasive biomarkers, yet their clinical translation faces substantial hurdles, primarily due to the challenge of identifying assay-compatible markers. Here, in this Review, we outline sophisticated computational frameworks, particularly leveraging artificial intelligence, to bridge this gap. We detail the integration of diverse data resources, including disease-specific omics, EV, protein localization, tissue-specific, drug, model system and immune databases. This Review comprehensively describes computational selection strategies, from rule-based sequential filtering to advanced machine learning for data fusion and deep learning for multi-omics integration. Crucially, it discusses the refinement of biomarker candidates using artificial-intelligence-driven predictions of protein structure and physicochemical properties, ensuring compatibility with existing assay systems. By systematically evaluating biomarkers for predictive performance, biological plausibility and clinical utility, this framework aims to accelerate the transition of EV research from discovery to clinical application, thereby enhancing precision medicine.

Indexed as

BiomarkersComputational BiologyExtracellular VesiclesAnimalsArtificial IntelligenceHumansMachine LearningBiomarkers

Identifiers

PMID41535547
PMCPMC12868610

What Socratic 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 Socratic graph.