ArticlebioRxiv : the preprint server for biology2023
Electrostatic encoding of genome organization principles within single native nucleosomes.
Sangwoo Park, Advait Athreya, Gustavo Ezequiel Carrizo, Nils A Benning, Michelle M Mitchener, Natarajan V Bhanu, Benjamin A Garcia, Bin Zhang, Tom W Muir, Erika L Pearce and 1 more
Open access · greenAbstract readPreprint
In one paragraphArticle in bioRxiv : the preprint server for biology, 2023. 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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0cells of the map it votes in
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
0 citing papers in PubMed, 7 citations in OpenAlex.
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4 · The recordCorrections and comments
5 · Who and what moneyAuthors and funding
11 authors at 6 institutions in 1 country.
Sangwoo ParkDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.ORCID 0000-0002-4379-4459 Advait AthreyaComputational and Systems Biology Program, MIT, Cambridge, MA, 02139, USA.
Gustavo Ezequiel CarrizoDepartment of Oncology, The Bloomberg-Kimmel Institute for Cancer Immunotherapy, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.
Nils A BenningDepartment of Biology, Johns Hopkins University. Baltimore, MD 21218, USA.
Michelle M MitchenerDepartment of Chemistry, Princeton University, Princeton, NJ 08544, USA.
Natarajan V BhanuDepartment of Biochemistry and Molecular Biophysics, Washington University School of Medicine St. Louis, St. Louis, MO 63110, USA.
Benjamin A GarciaDepartment of Biochemistry and Molecular Biophysics, Washington University School of Medicine St. Louis, St. Louis, MO 63110, USA.
Tom W MuirDepartment of Chemistry, Princeton University, Princeton, NJ 08544, USA.
Erika L PearceDepartment of Oncology, The Bloomberg-Kimmel Institute for Cancer Immunotherapy, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.
Taekjip HaDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.ORCID 0000-0003-2195-6258 Bloomberg (United States) · USIIT@MIT · USJohns Hopkins University · USPrinceton University · USWashington University in St. Louis · USBoston Children's Hospital · US
Funding
Shared Resources Core 2: Quantitative Proteomics CoreP01CA196539 · NCI · ROCKEFELLER UNIVERSITY · PI YOUNG, MICHAEL WARREN · 2015 to 2024
$17.6MStudies of Transfer RNAR35GM122560 · NIGMS · YALE UNIVERSITY · PI SOLL, DIETER · 2017 to 2022
$5.6MViral modulation of epitranscriptomic mechanismsR01AI118891 · NIAID · WASHINGTON UNIVERSITY · PI GARCIA, BENJAMIN A, WEITZMAN, MATTHEW D. · 2015 to 2025
$5.4MStructure, Function and Applications of InteinsR01GM086868 · NIGMS · ROCKEFELLER UNIVERSITY · PI MUIR, TOM · 2008 to 2025
$4.4MChromatin Function During Transcription and DNA Repair at Single Molecule Resolutionin Living CellsU01DK127432 · NIDDK · JOHNS HOPKINS UNIVERSITY · PI HA, TAEKJIP, JOHNSON, MARGARET ELLEN · 2020 to 2024
$3.5MProbing and Perturbing Transcriptional Condensates with Multiscale Modeling and Deep LearningR35GM133580 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Bin Zhang · 2019 to 2026
$3.1MQuantitative mass spectrometry for comprehending epigenetic mechanisms in a new underlying neurological developmental disorderR01HD106051 · NICHD · WASHINGTON UNIVERSITY · PI Benjamin A Garcia · 2022 to 2026
$2.6MThe Role of the Amino Acid Hypusine in the Maintenance and Function of Tissue-Resident MacrophagesR01AI170599 · NIAID · JOHNS HOPKINS UNIVERSITY · PI Erika L Pearce · 2023 to 2026
$2.1MInvestigating the Cellular and Biochemical Consequences of Novel OncohistonesF32GM131632 · NIGMS · PRINCETON UNIVERSITY · PI MITCHENER, MICHELLE · 2019 to 2021
$195kNCI NIH HHS P01 CA196539NIAID NIH HHS R01 AI118891NIAID NIH HHS R01 AI170599NICHD NIH HHS R01 HD106051NIDDK NIH HHS U01 DK127432NIGMS NIH HHS F32 GM131632NIGMS NIH HHS R01 GM086868NIGMS NIH HHS R35 GM122560NIGMS NIH HHS R35 GM133580
6 · The paper itselfAbstract
The eukaryotic genome, first packed into nucleosomes of about 150 bp around the histone core, is organized into euchromatin and heterochromatin, corresponding to the A and B compartments, respectively. Here, we asked if individual nucleosomes in vivo know where to go. That is, do mono-nucleosomes by themselves contain A/B compartment information, associated with transcription activity, in their biophysical properties? We purified native mono-nucleosomes to high monodispersity and used physiological concentrations of biological polyamines to determine their condensability. The chromosomal regions known to partition into A compartments have low condensability and vice versa.
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PMID38106048
PMCPMC10723453
OpenAlexW4389515063
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