Evidence map›Paper›PMID 37355772›Full record

ArticleBiophysical journal2023

Extracting nanoscale membrane morphology from single-molecule localizations.

Zach Marin, Lukas A Fuentes, Joerg Bewersdorf, David Baddeley

Abstract read
In one paragraph

Article in Biophysical journal, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

4 authors.

Zach MarinAuckland Bioengineering Institute, University of Auckland, Auckland, New Zealand; Department of Cell Biology, Yale University School of Medicine, New Haven, Connecticut; Department of Biomedical Engineering, Yale University, New Haven, Connecticut.
Lukas A FuentesDepartment of Cell Biology, Yale University School of Medicine, New Haven, Connecticut.
Joerg BewersdorfDepartment of Cell Biology, Yale University School of Medicine, New Haven, Connecticut; Department of Biomedical Engineering, Yale University, New Haven, Connecticut; Department of Physics, Yale University, New Haven, Connecticut.
David BaddeleyAuckland Bioengineering Institute, University of Auckland, Auckland, New Zealand; Department of Cell Biology, Yale University School of Medicine, New Haven, Connecticut. Electronic address: d.baddeley@auckland.ac.nz.

Funding

Skill Development for Diverse Scientific Careers: A New Course Predoctoral Program in Cellular and Molecular BiologyT32GM007223 · NIGMS · YALE UNIVERSITY · PI BASERGA, SUSAN J · 1985 to 2019
$31.0M
Yale Cooperative Hematology Specialized Core CenterU54DK106857 · NIDDK · YALE UNIVERSITY · PI JOHN HWA, Diane S Krause · 2015 to 2026
$9.7M
Enabling Nanoscale Dynamic Imaging of Vesicles and OrganellesR01GM118486 · NIGMS · YALE UNIVERSITY · PI BADDELEY, DAVID, BEWERSDORF, JOERG · 2016 to 2019
$3.4M
Convergent Graduate Training in Engineering, Physics and BiologyT32EB019941 · NIBIB · YALE UNIVERSITY · PI O'HERN, COREY · 2016 to 2020
$998k
NIBIB NIH HHS T32 EB019941NIDDK NIH HHS U54 DK106857NIGMS NIH HHS R01 GM118486NIGMS NIH HHS T32 GM007223Wellcome TrustWellcome Trust 203285/B/16/Z
6 · The paper itself

Abstract

Membrane surface reconstruction at the nanometer scale is required for understanding mechanisms of subcellular shape change. This historically has been the domain of electron microscopy, but extraction of surfaces from specific labels is a difficult task in this imaging modality. Existing methods for extracting surfaces from fluorescence microscopy have poor resolution or require high-quality super-resolution data that are manually cleaned and curated. Here, we present NanoWrap, a new method for extracting surfaces from generalized single-molecule localization microscopy data. This makes it possible to study the shape of specifically labeled membranous structures inside cells. We validate NanoWrap using simulations and demonstrate its reconstruction capabilities on single-molecule localization microscopy data of the endoplasmic reticulum and mitochondria. NanoWrap is implemented in the open-source Python Microscopy Environment.

Indexed as

MitochondriaNanotechnologyEndoplasmic ReticulumMembranesMicroscopy, Fluorescence

Identifiers

PMID37355772
PMCPMC10432223

What OpenQuestion holds

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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 OpenQuestion graph.