ArticlebioRxiv : the preprint server for biology2025
Persistent chromatin alterations and gene expression reprogramming follow widespread DNA damage in glioblastoma.
Aram S Modrek, Ken Chandradoss, Catherine Do, Ravesanker Ezhilarasan, Theodore Sakellaropoulos, Jerome Karp, Yingwen Ding, Ze-Yan Zhang, Melanie Graciani, Giulia Cova and 3 more
Abstract readPreprint
In one paragraphArticle in bioRxiv : the preprint server for biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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0citing papers in PubMed
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What it found
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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 registryThe trial behind it
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3 · Its place in the literatureWho cites it
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4 · The recordCorrections and comments
5 · Who and what moneyAuthors and funding
13 authors.
Aram S ModrekDepartment of Radiation Oncology, Keck School of Medicine of USC, Los Angeles, CA, 90033.ORCID 0000-0001-7586-9833 Catherine DoDepartment of Pathology, New York University Langone Health, New York, NY 10016.
Ravesanker EzhilarasanDepartment of Radiation Oncology, NYU Grossman School of Medicine, New York, NY 10016.
Theodore SakellaropoulosDepartment of Pathology, New York University Langone Health, New York, NY 10016.
Jerome KarpDepartment of Radiation Oncology, NYU Grossman School of Medicine, New York, NY 10016.
Yingwen DingDepartment of Radiation Oncology, NYU Grossman School of Medicine, New York, NY 10016.
Ze-Yan ZhangDepartment of Radiation Oncology, NYU Grossman School of Medicine, New York, NY 10016.
Melanie GracianiDepartment of Radiation Oncology, NYU Grossman School of Medicine, New York, NY 10016.
Giulia CovaDepartment of Pathology, New York University Langone Health, New York, NY 10016.
Jennifer E Phillips-CreminsDepartment of Bioengineering, University of Pennsylvania, Philadelphia, PA, 19104.ORCID 0000-0002-4702-0450 Funding
Project-005UL1TR001445 · NCATS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI BREDELLA, MIRIAM ANTOINETTE, HOCHMAN, JUDITH S · 2015 to 2025
$103.5MThe impact of changes in chromatin architecture on cancer phenotypes and tumor progressionP01CA229086 · NCI · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI ADRIANA HEGUY · 2019 to 2026
$17.0MNuclear organization and its role in gene regulationR35GM122515 · NIGMS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI Jane Amanda Skok · 2017 to 2026
$7.1MEngineering and Imaging 3D genome structure-function dynamics across time scalesU01DK127405 · NIDDK · UNIVERSITY OF PENNSYLVANIA · PI BLOBEL, GERD A, PHILLIPS-CREMINS, JENNIFER ELIZABETH · 2020 to 2024
$5.7MSingle-cell dissection of chromatin architecture mechanisms connecting pathologic instability and transcriptional silencingU01DA052715 · NIDA · UNIVERSITY OF PENNSYLVANIA · PI JAIN, RAJAN, JOYCE, ERIC F. · 2020 to 2024
$3.1MConnecting 3D genome misfolding to transcriptional silencing in fragile X syndromeR01MH120269 · NIMH · UNIVERSITY OF PENNSYLVANIA · PI PHILLIPS-CREMINS, JENNIFER ELIZABETH · 2019 to 2024
$3.1MConnecting 3D genome misfolding to transcriptional silencing in fragile X syndromeR37MH120269 · NIMH · WASHINGTON UNIVERSITY · PI Jennifer Elizabeth Phillips-Cremins · 2025 to 2026
$1.0MEpigenetic alterations after DNA damage repair drive treatment resistance in glioblastomaK08CA263302 · NCI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI Aram Sandaldjian Modrek · 2022 to 2026
$709kNCATS NIH HHS UL1 TR001445NCI NIH HHS K08 CA263302NCI NIH HHS P01 CA229086NIDA NIH HHS U01 DA052715NIDDK NIH HHS U01 DK127405NIGMS NIH HHS R35 GM122515NIMH NIH HHS R01 MH120269NIMH NIH HHS R37 MH120269
6 · The paper itselfAbstract
DNA damage from routine cellular processes or exogenous insults can have a lasting impact on gene regulation beyond genetic mutations. The prevailing paradigm for the consequences of DNA damage repair revolves around restoration of the original genetic sequence, but long-term changes in chromatin configuration, gene expression and DNA modifications have not been analyzed. We introduced numerous, simultaneous Cas9-mediated DNA double strand breaks (DSBs) at defined locations in human glioblastoma cells and tracked both non-genetic and genetic alterations over time. Megabase-scale genomic alterations that endured two weeks after the initial damage were detected, involving a shift from transiently increased intra-TAD interactions to persistent long range
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PMID40667295
PMCPMC12262309
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