Evidence map›Paper›PMID 38717135›Full record

ArticleeLife2024

The role of RNA in the maintenance of chromatin domains as revealed by antibody-mediated proximity labelling coupled to mass spectrometry.

Rupam Choudhury, Anuroop Venkateswaran Venkatasubramani, Jie Hua, Marco Borsò, Celeste Franconi, Sarah Kinkley, Ignasi Forné, Axel Imhof

Abstract read
In one paragraph

Article in eLife, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
  4. Review
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

8 authors.

Rupam ChoudhuryDepartment of Molecular Biology, Biomedical Center Munich, Ludwig-Maximilians University, Planegg-Martinsried, Germany.ORCID https://orcid.org/0009-0005-2669-7218
Anuroop Venkateswaran VenkatasubramaniDepartment of Molecular Biology, Biomedical Center Munich, Ludwig-Maximilians University, Planegg-Martinsried, Germany.ORCID https://orcid.org/0000-0003-2119-8741
Jie HuaDepartment of Molecular Biology, Biomedical Center Munich, Ludwig-Maximilians University, Planegg-Martinsried, Germany.ORCID https://orcid.org/0000-0003-4910-0945
Marco BorsòProtein Analysis Unit, Biomedical Center (BMC), Faculty of Medicine, Ludwig-Maximilians, University (LMU) Munich, Planegg-Martinsried, Germany.ORCID https://orcid.org/0000-0001-7467-7960
Celeste FranconiChromatin Structure and Function group, Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, Germany.
Sarah KinkleyChromatin Structure and Function group, Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, Germany.ORCID https://orcid.org/0000-0003-4997-4749
Ignasi FornéProtein Analysis Unit, Biomedical Center (BMC), Faculty of Medicine, Ludwig-Maximilians, University (LMU) Munich, Planegg-Martinsried, Germany.ORCID https://orcid.org/0000-0003-0309-907X
Axel ImhofDepartment of Molecular Biology, Biomedical Center Munich, Ludwig-Maximilians University, Planegg-Martinsried, Germany.ORCID https://orcid.org/0000-0003-2993-8249

Funding

Deutsche Forschungsgemeinschaft 213249687Deutsche Forschungsgemeinschaft 325871075Deutsche Forschungsgemeinschaft 419067076Deutsche Forschungsgemeinschaft QBMVolkswagen Foundation 97131
6 · The paper itself

Abstract

Eukaryotic chromatin is organized into functional domains, that are characterized by distinct proteomic compositions and specific nuclear positions. In contrast to cellular organelles surrounded by lipid membranes, the composition of distinct chromatin domains is rather ill described and highly dynamic. To gain molecular insight into these domains and explore their composition, we developed an antibody-based proximity biotinylation method targeting the RNA and proteins constituents. The method that we termed antibody-mediated proximity labelling coupled to mass spectrometry (AMPL-MS) does not require the expression of fusion proteins and therefore constitutes a versatile and very sensitive method to characterize the composition of chromatin domains based on specific signature proteins or histone modifications. To demonstrate the utility of our approach we used AMPL-MS to characterize the molecular features of the chromocenter as well as the chromosome territory containing the hyperactive X chromosome in

Indexed as

ChromatinMass SpectrometryRNAAnimalsAntibodiesBiotinylationCentromereDrosophilaDrosophila melanogasterRNA-Binding ProteinsStaining and LabelingX ChromosomeAntibodiesChromatinRNARNA-Binding ProteinschromosomesD. melanogasterdosage compensationgene expressionmembrane less organellesnuclear bodiesproximity proteomicsproximity RNA labellingstructural RNA

Identifiers

PMID38717135
PMCPMC11147508

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.