Evidence map›Paper›PMID 40718523›Full record

ArticleACS photonics2025

Multiplexed Chromatin Analysis Using Optical Spectroscopic Statistical Nanosensing.

Yuanzhe Su, Luay M Almassalha, Nicolas Acosta, Cody L Dunton, Karla I Medina, Emily Pujadas Liwag, Geng Wang, Vadim Backman

Abstract read
In one paragraph

Article in ACS photonics, 2025. 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

8 authors.

Yuanzhe SuCenter for Physical Genomics and Engineering and Department of Biomedical Engineering, Northwestern University, Evanston, Illinois 60208, United States.ORCID 0000-0003-1110-2822
Luay M AlmassalhaDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois 60208, United States; Department of Gastroenterology and Hepatology, Northwestern Memorial Hospital, Chicago, Illinois 60611, United States.
Nicolas AcostaCenter for Physical Genomics and Engineering and Department of Biomedical Engineering, Northwestern University, Evanston, Illinois 60208, United States.
Cody L DuntonCenter for Physical Genomics and Engineering and Department of Biomedical Engineering, Northwestern University, Evanston, Illinois 60208, United States.
Karla I MedinaCenter for Physical Genomics and Engineering and Interdisciplinary Biological Sciences Graduate Program, Northwestern University, Evanston, Illinois 60208, United States.
Emily Pujadas LiwagCenter for Physical Genomics and Engineering and Interdisciplinary Biological Sciences Graduate Program, Northwestern University, Evanston, Illinois 60208, United States.
Geng WangCenter for Physical Genomics and Engineering and Department of Biomedical Engineering, Northwestern University, Evanston, Illinois 60208, United States.ORCID 0000-0002-5615-4696
Vadim BackmanCenter for Physical Genomics and Engineering and Department of Biomedical Engineering, Northwestern University, Evanston, Illinois 60208, United States.ORCID 0000-0003-1981-1818

Funding

Technology Development UnitU54CA268084 · NCI · NORTHWESTERN UNIVERSITY · PI Vadim Backman, Daniela E Matei · 2022 to 2026
$10.0M
Studying E-cadherin dynamics during extravasation and metastatic colonizationU54CA261694 · NCI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI ROGER D KAMM, Vivek Shenoy · 2021 to 2026
$9.1M
Translating buccal nanocytology for lung cancer screening into clinical practiceR01CA225002 · NCI · NORTHWESTERN UNIVERSITY · PI Vadim Backman, HARIHARAN SUBRAMANIAN · 2018 to 2026
$5.0M
Northwestern University Allergy Immunology Research Program (NUAIR)T32AI083216 · NIAID · NORTHWESTERN UNIVERSITY AT CHICAGO · PI Stephanie Caroline Eisenbarth, ADAM WILLIAMS · 2010 to 2026
$4.1M
Reducing Cancer Transcriptional Heterogeneity through Regulation of Chromatin StructureR01CA228272 · NCI · NORTHWESTERN UNIVERSITY · PI BACKMAN, VADIM, ROY, HEMANT K. · 2018 to 2022
$3.2M
Physical Genomics and Engineering Training ProgramT32GM142604 · NIGMS · NORTHWESTERN UNIVERSITY · PI BACKMAN, VADIM · 2021 to 2025
$1.9M
NCI NIH HHS R01 CA225002NCI NIH HHS R01 CA228272NCI NIH HHS U54 CA261694NCI NIH HHS U54 CA268084NIAID NIH HHS T32 AI083216NIGMS NIH HHS T32 GM142604
6 · The paper itself

Abstract

In single cells, chromatin packs into organized structures to perform biological functions, such as RNA transcription regulation. Characterizing such structural behaviors, including packing density and mass scaling, is critical in epigenetics research. Partial wave spectroscopic (PWS) microscopy is a label-free, live-cell, high-throughput imaging modality that utilizes optical spectroscopic statistical nanosensing. Rather than resolving the exact chromatin packing structure, PWS extracts statistical packing information from spectroscopic interference signals. In this study, we evaluate its ability to characterize multiplexed chromatin packing density and mass scaling, as well as its spatial confidence interval, using finite difference time domain (FDTD) electromagnetic simulations. We validated the simulation-based analysis algorithm by comparing experimental PWS images against coregistered super-resolution acquisitions, confirming its accuracy in capturing chromatin packing metrics. We then applied this modality to live cells treated with different epigenetic agents, mapping spatial changes in chromatin packing in a high-throughput workflow.

Indexed as

chromatin imagingfinite difference time domain simulationspectroscopic nanosensing

Identifiers

PMID40718523
PMCPMC12288678

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.