Evidence map›Paper›PMID 39385470›Full record

ArticleBiophysical journal2024

Computing whole embryo strain maps during gastrulation.

David Denberg, Xiaoxuan Zhang, Tomer Stern, Eric Wieschaus, Krishna Garikipati, Stanislav Y Shvartsman

Abstract read
In one paragraph

Article in Biophysical journal, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Article
  2. A model for boundary-driven tissue morphogenesis.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  3. Dynamical systems of fate and form in development.Seminars in cell & developmental biology · 2025
    Review
  4. Article
  5. Cellular mechanisms of traumatic brain injury.npj biological physics and mechanics · 2025
    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

6 authors.

David DenbergLewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey.
Xiaoxuan ZhangDepartment of Mechanical Engineering, University of Michigan, Ann Arbor, Michigan.
Tomer SternDepartment of Biologic and Materials Sciences & Prosthodontics, University of Michigan, Ann Arbor, Michigan.
Eric WieschausLewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey; Department of Molecular Biology, Princeton University, Princeton, New Jersey.
Krishna GarikipatiDepartment of Mechanical Engineering, University of Michigan, Ann Arbor, Michigan; Department of Mathematics, University of Michigan, Ann Arbor, Michigan.
Stanislav Y ShvartsmanLewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey; Department of Molecular Biology, Princeton University, Princeton, New Jersey; Center for Computational Biology, Flatiron Institute - Simons Foundation, New York, New York. Electronic address: stas@princeton.edu.

Funding

Collective dynamics in cell clustersR01GM134204 · NIGMS · PRINCETON UNIVERSITY · PI Stanislav Y. Shvartsman · 2019 to 2026
$2.6M
NIGMS NIH HHS R01 GM134204
6 · The paper itself

Abstract

Gastrulation is a critical process during embryonic development that transforms a single-layered blastula into a multilayered embryo with distinct germ layers, which eventually give rise to all the tissues and organs of the organism. Studies across species have uncovered the mechanisms underlying the building blocks of gastrulation movements, such as localized in-plane and out-of-plane epithelial deformations. The next challenge is to understand dynamics on the scale of the embryo: this requires quantifying strain tensors, which rigorously describe the differences between the deformed configurations taken on by local clusters of cells at time instants of observation and their reference configuration at an initial time. We present a systematic strategy for computing such tensors from the local dynamics of cell clusters, which are chosen across the embryo from several regions whose morphogenetic fate is central to viable gastrulation. As an application of our approach, we demonstrate a strategy of identifying distinct Drosophila morphological domains using strain tensors.

Indexed as

GastrulationAnimalsBiomechanical PhenomenaDrosophilaDrosophila melanogasterEmbryo, NonmammalianModels, Biological

Identifiers

PMID39385470
PMCPMC11617634

What OpenQuestion holds

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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.