Evidence map›Paper›PMID 27851973›Full record

ArticleCell reports2016

Soft X-Ray Tomography Reveals Gradual Chromatin Compaction and Reorganization during Neurogenesis In Vivo.

Mark A Le Gros, E Josephine Clowney, Angeliki Magklara, Angela Yen, Eirene Markenscoff-Papadimitriou, Bradley Colquitt, Markko Myllys, Manolis Kellis, Stavros Lomvardas, Carolyn A Larabell

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers.

0numbers the graph read from it
0cells of the map it votes in
57citing 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

57 citing papers in PubMed.

  1. Article
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  11. Towards a quantitative theory for transmission X-ray microscopy.Beilstein journal of nanotechnology · 2025
    Article
  12. Article
  13. Article
  14. Review
  15. Article
  16. Article
  17. Multi-Scale Imaging of the Dynamic Organization of Chromatin.International journal of molecular sciences · 2023
    Review
  18. Review
  19. Review
  20. Article
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

10 authors.

Mark A Le GrosDepartment of Anatomy, University of California San Francisco, San Francisco, CA 94158, USA; Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA; National Center for X-Ray Tomography, University of California San Francisco, San Francisco, CA 94158, USA; Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
E Josephine ClowneyProgram in Biomedical Sciences, University of California San Francisco, San Francisco, CA 94158, USA.
Angeliki MagklaraDivision of Biomedical Research, Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Ioannina, Greece.
Angela YenBroad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Computer Science and Artificial Intelligence Laboratory, MIT, Cambridge, MA 02139, USA.
Eirene Markenscoff-PapadimitriouProgram in Neurosciences, University of California San Francisco, San Francisco, CA 94158, USA.
Bradley ColquittProgram in Neurosciences, University of California San Francisco, San Francisco, CA 94158, USA.
Markko MyllysDepartment of Physics, University of Jyväskylä, Jyväskylä 40014, Finland.
Manolis KellisBroad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Computer Science and Artificial Intelligence Laboratory, MIT, Cambridge, MA 02139, USA.
Stavros LomvardasDepartment of Anatomy, University of California San Francisco, San Francisco, CA 94158, USA; Program in Biomedical Sciences, University of California San Francisco, San Francisco, CA 94158, USA; Program in Neurosciences, University of California San Francisco, San Francisco, CA 94158, USA.
Carolyn A LarabellDepartment of Anatomy, University of California San Francisco, San Francisco, CA 94158, USA; Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA; National Center for X-Ray Tomography, University of California San Francisco, San Francisco, CA 94158, USA. Electronic address: carolyn.larabell@ucsf.edu.

Funding

TrainingP41GM103445 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LARABELL, CAROLYN A · 2012 to 2019
$8.2M
Deciphering nuclear bodies and compartments that govern singular olfactory receptor expression.U01DA040582 · NIDA · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI BROWN, LEWIS M., LOMVARDAS, STAVROS · 2015 to 2019
$3.2M
Devising New Technologies for Live Imaging of Epigenetic ProcessesR01DA030320 · NIDA · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LARABELL, CAROLYN A, LOMVARDAS, STAVROS · 2010 to 2014
$2.3M
Comparative analysis and regulatory architecture of epigenomics datasetsR01GM113708 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI KELLIS, MANOLIS · 2015 to 2017
$852k
NIDA NIH HHS R01 DA030320NIDA NIH HHS U01 DA040582NIGMS NIH HHS P41 GM103445NIGMS NIH HHS R01 GM113708
6 · The paper itself

Abstract

The realization that nuclear distribution of DNA, RNA, and proteins differs between cell types and developmental stages suggests that nuclear organization serves regulatory functions. Understanding the logic of nuclear architecture and how it contributes to differentiation and cell fate commitment remains challenging. Here, we use soft X-ray tomography (SXT) to image chromatin organization, distribution, and biophysical properties during neurogenesis in vivo. Our analyses reveal that chromatin with similar biophysical properties forms an elaborate connected network throughout the entire nucleus. Although this interconnectivity is present in every developmental stage, differentiation proceeds with concomitant increase in chromatin compaction and re-distribution of condensed chromatin toward the nuclear core. HP1β, but not nucleosome spacing or phasing, regulates chromatin rearrangements because it governs both the compaction of chromatin and its interactions with the nuclear envelope. Our experiments introduce SXT as a powerful imaging technology for nuclear architecture.

Indexed as

NeurogenesisTomography, X-RayAnimalsCell DifferentiationCell NucleolusChromatinChromobox Protein Homolog 5Chromosomal Proteins, Non-HistoneEpithelial CellsHeterochromatinImaging, Three-DimensionalMice, KnockoutNeuronsOlfactory BulbChromatinChromobox Protein Homolog 5Chromosomal Proteins, Non-HistoneHeterochromatinchromatindifferentiationneurogenesisnuclear organizationnucleusolfactory sensory neuronssoft X-ray tomography

Identifiers

PMID27851973
PMCPMC5135017

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.