Evidence map›Paper›PMID 41270905›Full record

ArticleLaboratory investigation; a journal of technical methods and pathology2026

Comparative Evaluation of Antibody-Oligonucleotide Conjugation Strategies for Multiplexed Imaging Applications.

Chiara Caraccio, Josie van de Klashorst, Shelby Cherkas, Sara Ancel, Tim Noah Kempchen, Gustavo Vazquez, Yury Goltsev, Yu Xin Wang, Garry P Nolan, John W Hickey

Abstract readComparative Study
In one paragraph

Article in Laboratory investigation; a journal of technical methods and pathology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

10 authors.

Chiara CaraccioDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California; Department of Pathology, Stanford University School of Medicine, Stanford, California; Harvard-MIT Health Sciences and Technology, Harvard Medical School, Boston, Massachusetts; Department of Brain & Cognitive Sciences, McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, Massachusetts.
Josie van de KlashorstDepartment of Biomedical Engineering, Duke University, Durham, North Carolina.
Shelby CherkasDepartment of Biomedical Engineering, Duke University, Durham, North Carolina.
Sara AncelCenter for Cardiovascular and Muscular Diseases, Sanford Burnham Prebys Medical Discovery Institute, La Jolla, California.
Tim Noah KempchenDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California.
Gustavo VazquezDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California.
Yury GoltsevDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California.
Yu Xin WangCenter for Cardiovascular and Muscular Diseases, Sanford Burnham Prebys Medical Discovery Institute, La Jolla, California.
Garry P NolanDepartment of Pathology, Stanford University School of Medicine, Stanford, California.
John W HickeyDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, California; Department of Pathology, Stanford University School of Medicine, Stanford, California; Department of Biomedical Engineering, Duke University, Durham, North Carolina. Electronic address: john.hickey@duke.edu.

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
Systems Biology CoreU19AI100627 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI NOLAN, GARRY P · 2012 to 2021
$49.1M
The Cellular Response to Elafin in PAHP01HL108797 · NHLBI · STANFORD UNIVERSITY · PI ZAMANIAN, ROHAM · 2011 to 2021
$19.7M
Technology CoreU19AI135976 · NIAID · SEATTLE CHILDREN'S HOSPITAL · PI ADEREM, ALAN A · 2018 to 2022
$17.0M
The Cellular Geography of Therapeutic Resistance in CancerU2CCA233195 · NCI · DANA-FARBER CANCER INST · PI JOHNSON, BRUCE E. · 2018 to 2023
$13.7M
Spatial-Genomic Integrative Multi-Species Analysis of Lymph Node MetastasisU54CA209971 · NCI · STANFORD UNIVERSITY · PI NOLAN, GARRY P, PLEVRITIS, SYLVIA KATINA · 2016 to 2021
$11.0M
Project 3: Identifying plasma biomarkers predicting time to HIV rebound after treatment interruptionP01AI131374 · NIAID · J. DAVID GLADSTONE INSTITUTES · PI ROAN, NADIA R · 2017 to 2021
$8.5M
Stanford Tissue Mapping Center - STELLARU54HG012723 · NHGRI · STANFORD UNIVERSITY · PI NOLAN, GARRY P, SNYDER, MICHAEL P. · 2022 to 2025
$7.8M
The Lung PCA: A Multi-Dimensional Atlas of Pulmonary PremalignancyU2CCA233238 · NCI · BOSTON UNIVERSITY MEDICAL CAMPUS · PI DUBINETT, STEVEN M., SPIRA, AVRUM E · 2018 to 2021
$7.0M
Stanford Tissue Mapping CenterU54HG010426 · NHGRI · STANFORD UNIVERSITY · PI SNYDER, MICHAEL P. · 2018 to 2021
$5.1M
Tissue Cytokine Sequestration and Immune Regulation in AutoimmunityU01AI101984 · NIAID · STANFORD UNIVERSITY · PI BOLLYKY, PAUL L · 2012 to 2021
$5.0M
T Cell Reagent Research for Monitoring T Cell in Food AllergyU01AI140498 · NIAID · STANFORD UNIVERSITY · PI NADEAU, KARI C. · 2018 to 2022
$1.8M
NCI NIH HHS T32 CA196585NCI NIH HHS U2C CA233195NCI NIH HHS U2C CA233238NCI NIH HHS U54 CA209971NHGRI NIH HHS U54 HG010426NHGRI NIH HHS U54 HG012723NHLBI NIH HHS P01 HL108797NIAID NIH HHS P01 AI131374NIAID NIH HHS U01 AI101984NIAID NIH HHS U01 AI140498NIAID NIH HHS U19 AI057229NIAID NIH HHS U19 AI100627NIAID NIH HHS U19 AI135976NIDDK NIH HHS UH3 DK114937NINDS NIH HHS R00 NS120278
6 · The paper itself

Abstract

Antibody-oligonucleotide conjugates (AOCs) have emerged as versatile tools with applications spanning diagnostics, therapeutics, and high-dimensional imaging. One major application of these is in multiplexed imaging techniques, such as CO-Detection by indEXing, which allow for the visualization of tissue networks at the single-cell level. In this study, we evaluated 4 methods-maleimide-modified, amine-modified, dibenzocyclooctyne (DBCO)-modified, and a site-specific enzyme-based method-to optimize the generation of AOCs for multiplexed imaging applications. Our assessment focused on key performance parameters, including conjugation efficiency, signal brightness, stability, reproducibility, and cost-effectiveness. Each conjugation chemistry proved effective, though the azide chemistry with DBCO oligonucleotides demonstrated more consistent conjugation success and stable signal retention over time. Compared with other protocols, this method produced reliably bright images and offered a more favorable cost profile, as further confirmed in a full-scale CO-Detection by indEXing multiplexed imaging experiment that yielded reproducible spatial data. The observed stability and reproducibility of the DBCO approach suggest that it may help reduce reagent waste and labor costs while facilitating the development of more comprehensive antibody panels. These findings indicate that the DBCO-modified oligonucleotide conjugation method is a valuable option for generating AOCs for multiplexed imaging and target current shortcomings, enabling more consistent, broader, and deeper multiplexed profiling.

Indexed as

AntibodiesImmunoconjugatesOligonucleotidesAnimalsHumansReproducibility of ResultsAntibodiesImmunoconjugatesOligonucleotidesantibody modification chemistryantibody-oligonucleotide conjugatesCODEX imagingmultiplexed imagingspatial omicsspatial proteomics

Identifiers

PMID41270905
PMCPMC12746613

What Socratic holds

Textmetadata
LicenceTDM
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.