Evidence map›Paper›PMID 42423308›Full record

ArticleNucleic acids research2026

Different modes of engagement with the nucleosome acidic patch yield distinct functional outcomes.

Ujani Chakraborty, Emma Christina Saccone, Grisel Cruz-Becerra, Laiba F Khan, Nina Arslanovic, Rhiannon Aguilar, Susan L Gloor, Sabrina R Hunt, Heather J Folkwein, Natalia Ledo Husby and 12 more

Abstract read
In one paragraph

Article in Nucleic acids research, 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

5 · Who and what money

Authors and funding

22 authors.

Ujani ChakrabortyWeill Cornell Medicine, Department of Pathology and Laboratory Medicine, NY 10065, United States.
Emma Christina SacconeCenter for Eukaryotic Gene Regulation, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, United States.
Grisel Cruz-BecerraDepartment of Molecular Biology, UCSD, 9500 Gilman Drive, San Diego, CA 92093,United States.ORCID 0000-0001-6297-4132
Laiba F KhanEpiCypher Inc., Durham, NC 27709, United States.
Nina ArslanovicWeill Cornell Medicine, Department of Pathology and Laboratory Medicine, NY 10065, United States.
Rhiannon AguilarWeill Cornell Medicine, Department of Pathology and Laboratory Medicine, NY 10065, United States.
Susan L GloorEpiCypher Inc., Durham, NC 27709, United States.ORCID 0000-0001-6911-395X
Sabrina R HuntEpiCypher Inc., Durham, NC 27709, United States.
Heather J FolkweinCenter for Eukaryotic Gene Regulation, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, United States.
Natalia Ledo HusbyEpiCypher Inc., Durham, NC 27709, United States.
Keith E MaierEpiCypher Inc., Durham, NC 27709, United States.ORCID 0000-0002-1746-0068
Matthew R MarundeEpiCypher Inc., Durham, NC 27709, United States.ORCID 0009-0007-5934-7200
Noah K SchomburgEpiCypher Inc., Durham, NC 27709, United States.
Anup VaidyaEpiCypher Inc., Durham, NC 27709, United States.ORCID 0009-0007-7817-9986
Martis W CowlesEpiCypher Inc., Durham, NC 27709, United States.
Bryan J VentersEpiCypher Inc., Durham, NC 27709, United States.ORCID 0000-0002-4607-0587
George KassavetisDepartment of Molecular Biology, UCSD, 9500 Gilman Drive, San Diego, CA 92093,United States.
Zu-Wen SunEpiCypher Inc., Durham, NC 27709, United States.
James T KadonagaDepartment of Molecular Biology, UCSD, 9500 Gilman Drive, San Diego, CA 92093,United States.
Jean-Paul ArmacheCenter for Eukaryotic Gene Regulation, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, United States.
Michael-Christopher KeoghEpiCypher Inc., Durham, NC 27709, United States.ORCID 0000-0002-2219-8623
Jessica K TylerWeill Cornell Medicine, Department of Pathology and Laboratory Medicine, NY 10065, United States.ORCID 0000-0001-9765-1659

Funding

Mechanisms of Eukaryotic Gene RegulationR35GM118060 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI James T. Kadonaga · 2016 to 2026
$7.5M
Development of efficient quantitative chromatin profiling in kit and high-throughput formatsR44HG010640 · NHGRI · EPICYPHER, INC. · PI KEOGH, MICHAEL-CHRISTOPHER, VENTERS, BRYAN J · 2020 to 2022
$2.4M
Novel pathways that regulate DNA double-strand break repair events in mammalian cellsR35GM139816 · NIGMS · WEILL MEDICAL COLL OF CORNELL UNIV · PI TYLER, JESSICA K · 2021 to 2025
$2.1M
Accelerated discovery of methylation targeted therapeutic developmentR44CA212733 · NCI · EPICYPHER, INC. · PI SUN, ZU-WEN · 2018 to 2019
$2.1M
HEI: Acquisition of a Talos Arctica G2S10OD026822 · OD · PENNSYLVANIA STATE UNIVERSITY, THE · PI HAFENSTEIN, SUSAN · 2019 to 2019
$2.0M
Multiplex nucleosome-based profiling for the development of next-generation chromatin labeling reagentsR44GM136172 · NIGMS · EPICYPHER, INC. · PI SUN, ZU-WEN · 2020 to 2021
$1.8M
High-throughput methyltransferase assays using recombinant nucleosome substratesR44GM117683 · NIGMS · EPICYPHER, INC. · PI SUN, ZU-WEN · 2018 to 2019
$1.7M
Structural and Functional Studies of lncRNAs in Gene ActivationR01GM149780 · NIGMS · DREXEL UNIVERSITY · PI Srinivas Somarowthu · 2023 to 2026
$1.7M
Development of highly specific and renewable chromatin labelling reagentsR43GM134834 · NIGMS · EPICYPHER, INC. · PI JOHNSTONE, ANDREA LYNN · 2019 to 2019
$300k
Frederick National Laboratory for Cancer Research HSSN261200800001ENCI NIH HHS R44 CA212733NHGRI NIH HHS R44 HG010640NIGMS NIH HHS R01 GM149780NIGMS NIH HHS R35 GM118060NIGMS NIH HHS R35 GM139816NIGMS NIH HHS R43 GM134834NIGMS NIH HHS R44 GM117683NIGMS NIH HHS R44 GM136172NIH HHS R01GM149780NIH HHS R35GM118060NIH HHS R35GM139816NIH HHS R43GM134834NIH HHS R44CA212733NIH HHS R44GM117683NIH HHS R44GM136172NIH HHS R44HG010640NIH HHS S10 OD026822NIH HHS S10OD026822-01
6 · The paper itself

Abstract

The nucleosome acidic patch is a hub of coordinated engagement by proteins that regulate genomic function. Here, we report that Saccharomyces cerevisiae Dot5 contains an arginine-rich HMGN-like motif that mediates nucleosome acidic patch binding and is required for the cell growth, DNA repair, and heterochromatin defects exhibited when the protein is overexpressed. The heterologous expression of camelid single-chain antibodies to the nucleosome acidic patch confers a similar range of phenotypes, with the most severe observed when an "arginine-anchor" mode of binding analogous to many endogenous factors is employed. This highlights a delicate balance between nucleosome acidic patch interactors critical for normal cellular function and dysregulated in disease.

Indexed as

Nuclear ProteinsNucleosomesSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsAmino Acid MotifsDNA RepairHeterochromatinProtein BindingHeterochromatinNuclear ProteinsNucleosomesSaccharomyces cerevisiae Proteins

Identifiers

PMID42423308
PMCPMC13347269

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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.