Evidence map›Paper›PMID 41959352›Full record

ArticlebioRxiv : the preprint server for biology2026

Nuclear blebs are composed of variable chromatin states but consistently enrich transcription initiation relative to elongation.

Madeleine Clark, Antonela Losada, Sonia Jahng, Allen Saini, Fawwaz Chowhan, Gwyneth Woods, Adelaide Cutler, Stephanie Hallerman, Minnah Gayed, Sayali Bhalerao and 17 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

27 authors.

Madeleine ClarkBiology department, University of Massachusetts Amherst, Amherst, MA.ORCID 0009-0001-3617-7452
Antonela LosadaBiology department, University of Massachusetts Amherst, Amherst, MA.ORCID 0009-0000-3648-6362
Sonia JahngBiology department, University of Massachusetts Amherst, Amherst, MA.
Allen SainiBiology department, University of Massachusetts Amherst, Amherst, MA.
Fawwaz ChowhanBiology department, University of Massachusetts Amherst, Amherst, MA.
Gwyneth WoodsBiology department, University of Massachusetts Amherst, Amherst, MA.
Adelaide CutlerBiology department, University of Massachusetts Amherst, Amherst, MA.
Stephanie HallermanBiology department, University of Massachusetts Amherst, Amherst, MA.
Minnah GayedBiology department, University of Massachusetts Amherst, Amherst, MA.
Sayali BhaleraoBiology department, University of Massachusetts Amherst, Amherst, MA.
Emanuel BullockBiology department, University of Massachusetts Amherst, Amherst, MA.
Chris SantryBiology department, University of Massachusetts Amherst, Amherst, MA.
Adriana PanagiotouBiology department, University of Massachusetts Amherst, Amherst, MA.
Bailey LapollaBiology department, University of Massachusetts Amherst, Amherst, MA.
Nitish BhattaBiology department, University of Massachusetts Amherst, Amherst, MA.
Savanah FreidusBiology department, University of Massachusetts Amherst, Amherst, MA.
Gurnoor KaurBiology department, University of Massachusetts Amherst, Amherst, MA.ORCID 0009-0003-3761-7557
David BaiBiology department, University of Massachusetts Amherst, Amherst, MA.
Daniel HuBiology department, University of Massachusetts Amherst, Amherst, MA.
Kian TadbiriBiology department, University of Massachusetts Amherst, Amherst, MA.
Marry PackardBiology department, University of Massachusetts Amherst, Amherst, MA.
Katherine DorfmanBiology department, University of Massachusetts Amherst, Amherst, MA.
Nickolas BorowskiBiology department, University of Massachusetts Amherst, Amherst, MA.
Kelsey PrinceBiology department, University of Massachusetts Amherst, Amherst, MA.ORCID 0009-0004-5640-2479
Nick LangBiology department, University of Massachusetts Amherst, Amherst, MA.ORCID 0009-0002-5073-7062
Carline Fermino Do RosarioBiology department, University of Massachusetts Amherst, Amherst, MA.ORCID 0000-0002-7282-6325
Andrew D StephensBiology department, University of Massachusetts Amherst, Amherst, MA.ORCID 0000-0001-5474-7845

Funding

Role of chromatin mechanics in nuclear shape and integrityR35GM154928 · NIGMS · UNIVERSITY OF MASSACHUSETTS AMHERST · PI Andrew Daniel Stephens · 2024 to 2026
$1.2M
NIGMS NIH HHS R35 GM154928
6 · The paper itself

Abstract

Nuclear blebs are herniations of the nucleus that occur in many human conditions including aging, heart disease, muscular dystrophy, and many cancers. Nuclear blebbing causes nuclear rupture and cellular dysfunction. However, understanding the formation, stability, and identification of nuclear blebs remains an ongoing challenge. Our previous studies reveal that nuclear blebs are best hallmarked by decreased DNA density. To determine if chromatin decompaction underlies decreased DNA density in nuclear blebs, we investigated the histone composition of nuclear blebs across multiple cell lines. Time lapse and immunofluorescence imaging revealed that global histone H2B and H3 levels are decreased in the nuclear bleb relative to the nuclear body. Next, we imaged histone modification states of euchromatin and heterochromatin, which respectively track decompact and compact states of chromatin. Overall, we find that nuclear blebs display variable histone modification state across cell lines, as euchromatin does not consistently enrich nor is heterochromatin consistently depleted. Nuclear blebs did consistently show active RNA Pol II initiation is enriched relative to elongation. Thus, we find that the local histone modification state is not an essential component of nuclear blebs while transcription initiation enrichment over elongation is reproducible across cell lines and conditions.

Indexed as

euchromatinheterochromatinhistonesnuclear blebnucleustranscription initiation

Identifiers

PMID41959352
PMCPMC13060922

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.