Evidence map›Paper›PMID 39878045›Full record

ArticleJournal of cell science2025

Nuclear blebs are associated with destabilized chromatin-packing domains.

Emily M Pujadas Liwag, Nicolas Acosta, Luay Matthew Almassalha, Yuanzhe Patrick Su, Ruyi Gong, Masato T Kanemaki, Andrew D Stephens, Vadim Backman

Abstract read
In one paragraph

Article in Journal of cell science, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing 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

13 citing papers in PubMed.

  1. Article
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  11. Article
  12. How the chromatin landscape influences nuclear morphology.Frontiers in cell and developmental biology · 2025
    Review
  13. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

8 authors.

Emily M Pujadas LiwagDepartment of Biomedical Engineering, Northwestern University, Evanston, IL 60208, USA.ORCID 0000-0002-3520-835X
Nicolas AcostaDepartment of Biomedical Engineering, Northwestern University, Evanston, IL 60208, USA.ORCID 0009-0008-9278-7491
Luay Matthew AlmassalhaDepartment of Biomedical Engineering, Northwestern University, Evanston, IL 60208, USA.ORCID 0000-0001-9355-7681
Yuanzhe Patrick SuDepartment of Biomedical Engineering, Northwestern University, Evanston, IL 60208, USA.ORCID 0000-0003-1110-2822
Ruyi GongDepartment of Biomedical Engineering, Northwestern University, Evanston, IL 60208, USA.ORCID 0009-0004-1008-2844
Masato T KanemakiDepartment of Chromosome Science, National Institute of Genetics, ROIS, Mishima, Shizuoka 411-8540, Japan.ORCID 0000-0002-7657-1649
Andrew D StephensBiology Department, University of Massachusetts Amherst, Amherst, MA 01003.ORCID 0000-0001-5474-7845
Vadim BackmanDepartment of Biomedical Engineering, Northwestern University, Evanston, IL 60208, USA.ORCID 0000-0003-1981-1818

Funding

Center for 3D Structure and Physics of the GenomeUM1HG011536 · NHGRI · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI DEKKER, JOB, MIRNY, LEONID A · 2020 to 2024
$11.8M
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 · 2021 to 2026
$9.1M
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
Role of chromatin mechanics in nuclear shape and integrityR35GM154928 · NIGMS · UNIVERSITY OF MASSACHUSETTS AMHERST · PI Andrew Daniel Stephens · 2024 to 2026
$1.2M
Analyzing the role of chromatin compaction in nuclear mechanics, structure, and functionR00GM123195 · NIGMS · UNIVERSITY OF MASSACHUSETTS AMHERST · PI STEPHENS, ANDREW DANIEL · 2020 to 2022
$745k
Christina Carinato Charitable FoundationNational Science Foundation EFMA-1830961NCI NIH HHS R01 CA228272NCI NIH HHS U54 CA261694NCI NIH HHS U54 CA268084NHGRI NIH HHS UM1 HG011536NIAID NIH HHS T32 AI083216NIGMS NIH HHS R00 GM123195NIGMS NIH HHS R35 GM154928NIH HHS R01CA228272Northwestern University
6 · The paper itself

Abstract

Disrupted nuclear shape is associated with multiple pathological processes including premature aging disorders, cancer-relevant chromosomal rearrangements and DNA damage. Nuclear blebs (i.e. herniations of the nuclear envelope) can be induced by (1) nuclear compression, (2) nuclear migration (e.g. cancer metastasis), (3) actin contraction, (4) lamin mutation or depletion, and (5) heterochromatin enzyme inhibition. Recent work has shown that chromatin transformation is a hallmark of bleb formation, but the transformation of higher-order structures in blebs is not well understood. As higher-order chromatin has been shown to assemble into nanoscopic packing domains, we investigated whether (1) packing domain organization is altered within nuclear blebs and (2) whether alteration in packing domain structure contributed to bleb formation. Using dual-partial wave spectroscopic microscopy, we show that chromatin-packing domains within blebs are transformed both by B-type lamin depletion and the inhibition of heterochromatin enzymes compared to what is seen in the nuclear body. Pairing these results with single-molecule localization microscopy of constitutive heterochromatin, we show fragmentation of nanoscopic heterochromatin domains within bleb domains. Overall, these findings indicate that chromatin within blebs is associated with a fragmented higher-order chromatin structure.

Indexed as

Cell NucleusChromatinNuclear EnvelopeHeterochromatinHumansLamin Type BChromatinHeterochromatinLamin Type BChromatin motionChromatin nanodomainsHeterochromatinLaminNanoscale imagingNuclear blebbingNuclear mechanics

Identifiers

PMID39878045
PMCPMC11883274

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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.