Evidence map›Paper›PMID 35412853›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2022

Dynamics of

Shannon E Keenan, Maria Avdeeva, Liu Yang, Daniel S Alber, Eric F Wieschaus, Stanislav Y Shvartsman

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 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. The role of geometry in morphogenesis.Development (Cambridge, England) · 2026
    Review
  2. Article
  3. The regulatory logic of a dose-dependent developmental fate decision.bioRxiv : the preprint server for biology · 2026
    Article
  4. A model for boundary-driven tissue morphogenesis.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  5. Article
  6. Article
  7. bioRxiv : the preprint server for biology · 2025
    Article
  8. Article
  9. Article
  10. Review
  11. 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

6 authors.

Shannon E KeenanDepartment of Chemical and Biological Engineering, Princeton University, Princeton, NJ 08540.
Maria AvdeevaCenter for Computational Biology, Flatiron Institute, Simons Foundation, New York, NY 10010.ORCID 0000-0002-6366-2269
Liu YangThe Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ 08540.
Daniel S AlberDepartment of Chemical and Biological Engineering, Princeton University, Princeton, NJ 08540.ORCID 0000-0003-3057-995X
Eric F WieschausThe Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ 08540.
Stanislav Y ShvartsmanThe Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ 08540.

Funding

Collective dynamics in cell clustersR01GM134204 · NIGMS · PRINCETON UNIVERSITY · PI Stanislav Y. Shvartsman · 2019 to 2026
$2.6M
Harnessing optogenetics to diagnose and therapeutically rewire cancer cell signalingDP2EB024247 · NIBIB · PRINCETON UNIVERSITY · PI TOETTCHER, JARED E · 2016 to 2016
$2.4M
Mechanisms of signal integration in developmental control of organ size and tissue patterningR01HD085870 · NICHD · UNIVERSITY OF MASSACHUSETTS BOSTON · PI VERAKSA, ALEXEY · 2016 to 2020
$1.6M
Mechanisms of signal integration in developmental control of organ size and tissue patterningR01GM141843 · NIGMS · UNIVERSITY OF MASSACHUSETTS BOSTON · PI VERAKSA, ALEXEY · 2021 to 2024
$1.2M
Optogenetic control of spatio-temporal patterning in early embryogenesisF32GM119297 · NIGMS · PRINCETON UNIVERSITY · PI JOHNSON, HEATH E · 2016 to 2018
$173k
HHS | National Institutes of Health (NIH) DP2EB024247HHS | National Institutes of Health (NIH) F32GM119297HHS | National Institutes of Health (NIH) RO1HD0858870NIBIB NIH HHS DP2 EB024247NICHD NIH HHS R01 HD085870NIGMS NIH HHS F32 GM119297NIGMS NIH HHS R01 GM134204NIGMS NIH HHS R01 GM141843
6 · The paper itself

Abstract

During early Drosophila embryogenesis, a network of gene regulatory interactions orchestrates terminal patterning, playing a critical role in the subsequent formation of the gut. We utilized CRISPR gene editing at endogenous loci to create live reporters of transcription and light-sheet microscopy to monitor the individual components of the posterior gut patterning network across 90 min prior to gastrulation. We developed a computational approach for fusing imaging datasets of the individual components into a common multivariable trajectory. Data fusion revealed low intrinsic dimensionality of posterior patterning and cell fate specification in wild-type embryos. The simple structure that we uncovered allowed us to construct a model of interactions within the posterior patterning regulatory network and make testable predictions about its dynamics at the protein level. The presented data fusion strategy is a step toward establishing a unified framework that would explore how stochastic spatiotemporal signals give rise to highly reproducible morphogenetic outcomes.

Indexed as

Body PatterningDrosophila melanogasterDrosophila ProteinsEndodermGene Regulatory NetworksAnimalsGene Expression Regulation, DevelopmentalDrosophila Proteinsdata integrationDrosophila developmentgene regulatory networksimage registrationtranscriptomics

Identifiers

PMID35412853
PMCPMC9169638

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.