Evidence map›Paper›PMID 42591058›Full record

ArticleAdvanced science (Weinheim, Baden-Wurttemberg, Germany)2026

Chromatin Packing Domain Engineering Through the Manipulation of Nuclear Cationic States.

Cody L Dunton, Carrillo Paola Gonzalez, Luay Almassalha, Wing Shun Li, Ruyi Gong, Nicolas Acosta, I Chae Ye, Jane Frederick, Christopher Hogg, Saira John and 4 more

Abstract read
In one paragraph

Article in Advanced science (Weinheim, Baden-Wurttemberg, Germany), 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. Rosamine derivatives ofOrganic & biomolecular chemistry · 2026
    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

14 authors.

Cody L DuntonDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.ORCID https://orcid.org/0000-0002-0909-9647
Carrillo Paola GonzalezDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.
Luay AlmassalhaDepartment of Gastroenterology and Hepatology, Northwestern Memorial Hospital, Chicago, Illinois, USA.
Wing Shun LiDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.
Ruyi GongDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.
Nicolas AcostaDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.
I Chae YeDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.
Jane FrederickDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.
Christopher HoggDepartment of Chemistry, Durham University, Durham, UK.
Saira JohnDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.
J A Gareth WilliamsDepartment of Chemistry, Durham University, Durham, UK.ORCID https://orcid.org/0000-0002-4688-3000
Rikkert J NapDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.
Igal SzleiferDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.
Vadim BackmanDepartment of Biomedical Engineering, Northwestern University, Evanston, Illinois, USA.

Funding

Tumor Environment and Metastasis (TEAM) Research ProgramP30CA060553 · NCI · NORTHWESTERN UNIVERSITY AT CHICAGO · PI Devalingam Mahalingam · 1993 to 2026
$153.9M
Spatio-Temporal Organization of Chromatin and Information Transfer in CancerU54CA193419 · NCI · NORTHWESTERN UNIVERSITY AT CHICAGO · PI MARKO, JOHN F · 2015 to 2020
$10.4M
Technology Development UnitU54CA268084 · NCI · NORTHWESTERN UNIVERSITY · PI Vadim Backman, Daniela E Matei · 2022 to 2026
$10.0M
Translating buccal nanocytology for lung cancer screening into clinical practiceR01CA225002 · NCI · NORTHWESTERN UNIVERSITY · PI Vadim Backman, HARIHARAN SUBRAMANIAN · 2018 to 2026
$5.0M
Reducing Cancer Transcriptional Heterogeneity through Regulation of Chromatin StructureR01CA228272 · NCI · NORTHWESTERN UNIVERSITY · PI BACKMAN, VADIM, ROY, HEMANT K. · 2018 to 2022
$3.2M
Optical hyperspectral nanoscale chromatin analysis for colon cancer risk-stratificationR01CA289294 · NCI · NORTHWESTERN UNIVERSITY · PI Vadim Backman, Hemant K. Roy · 2025 to 2026
$1.3M
Predictive modeling of CD-68 inflammatory and anti-inflammatory chromatin packing domains for personalized biomarker discoveryK23DK144661 · NIDDK · NORTHWESTERN UNIVERSITY · PI Luay Matthew Almassalha · 2025 to 2026
$376k
Center for Physical Genomics and Engineering at Northwestern UniversityDurham Doctoral Studentship at Durham UniversityNCI NIH HHS P30 CA060553NCI NIH HHS R01 CA225002NCI NIH HHS R01 CA228272NCI NIH HHS R01 CA289294NCI NIH HHS U54 CA193419NCI NIH HHS U54 CA268084NIDDK NIH HHS K23 DK144661NIH HHS 1K23DK144661NIH HHS R01CA225002NIH HHS R01CA228272NIH HHS R01CA289294NIH HHS U54CA193419NIH HHS U54CA268084Northwestern University Pathology Core Facility and a Cancer Center CA060553
6 · The paper itself

Abstract

Cells must preserve and rewrite transcriptional memory to maintain identity and adapt to stress, yet the physical mechanisms governing this process remain unclear. Recent work implicates genome geometry in encoding transcriptional memory, with nanoscopic chromatin packing domains (PDs) serving as structural units that stabilize or reprogram transcriptional states. One powerful, yet underexplored regulator of this architecture is the nuclear ionic environment. Divalent cations can stabilize PDs through charge screening and phosphate bridging, suggesting a direct physicochemical mechanism linking ions to genome organization. In this study, we show that manipulating nuclear divalent cations is sufficient to reshape chromatin architecture, transcriptional output, and cellular resilience in living human cancer cells. Selective cation depletion (BAPTA-AM, APDAP-AM) produces smaller, less compact PDs and diminishes H3K9me3-enriched heterochromatic cores, structural anchors of transcriptional memory. In contrast, magnesium enrichment enhances packing density and domain maturation. Live-cell nanoscopy reveals that chromatin packing scaling responds within minutes to ionic perturbation. Transcriptomic profiling demonstrates coordinated gene expression changes and reduced adaptive plasticity, while chelator pretreatment increases chemotherapy sensitivity. Together, these findings identify nuclear ions as rapid, reversible regulators of chromatin packing domains and transcriptional memory, revealing ionic homeostasis as a fundamental mechanism linking genome architecture to cellular adaptation.

Identifiers

PMID42591058
PMCPMC13470300

What OpenQuestion holds

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Registered trials

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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.