Evidence map›Paper›PMID 37529283›Full record

ArticleQRB discovery2022

Integrative structural modelling and visualisation of a cellular organelle.

Ludovic Autin, Brett A Barbaro, Andrew I Jewett, Axel Ekman, Shruti Verma, Arthur J Olson, David S Goodsell

Abstract read
In one paragraph

Article in QRB discovery, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing 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

11 citing papers in PubMed.

  1. Article
  2. Article
  3. Molecular architecture of Influenza A virions.bioRxiv : the preprint server for biology · 2026
    Article
  4. Mol* web molecular graphics engine.Protein science : a publication of the Protein Society · 2026
    Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. CellVis2: a conference on visualizing the molecular cell.Trends in biochemical sciences · 2024
    Article
  10. Article
  11. Soft X-ray tomograms provide a structural basis for whole-cell modeling.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2023
    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

7 authors.

Ludovic AutinDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.ORCID https://orcid.org/0000-0002-2197-191X
Brett A BarbaroDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.ORCID https://orcid.org/0000-0003-2156-7877
Andrew I JewettDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.ORCID https://orcid.org/0000-0001-9861-3048
Axel EkmanDepartment of Anatomy, University of California, San Francisco, San Francisco, CA 94143, USA.ORCID https://orcid.org/0000-0002-4210-2617
Shruti VermaDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.ORCID https://orcid.org/0000-0002-0929-2973
Arthur J OlsonDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.ORCID https://orcid.org/0000-0003-0558-4618
David S GoodsellDepartment of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.ORCID https://orcid.org/0000-0002-5932-2130

Funding

Modeling and Interacting with the Visible Molecular CellR01GM120604 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI AUTIN, LUDOVIC · 2016 to 2025
$4.2M
NIGMS NIH HHS R01 GM120604
6 · The paper itself

Abstract

Models of insulin secretory vesicles from pancreatic beta cells have been created using the cellPACK suite of tools to research, curate, construct and visualise the current state of knowledge. The model integrates experimental information from proteomics, structural biology, cryoelectron microscopy and X-ray tomography, and is used to generate models of mature and immature vesicles. A new method was developed to generate a confidence score that reconciles inconsistencies between three available proteomes using expert annotations of cellular localisation. The models are used to simulate soft X-ray tomograms, allowing quantification of features that are observed in experimental tomograms, and in turn, allowing interpretation of X-ray tomograms at the molecular level.

Indexed as

Insulin secretory granuleintegrative mesoscale modellingpancreatic beta cellstructural biology

Identifiers

PMID37529283
PMCPMC10392685

What Socratic holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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 Socratic graph.