Evidence map›Paper›PMID 24123936›Full record

ReviewWiley interdisciplinary reviews. Developmental biology

Building quantitative, three-dimensional atlases of gene expression and morphology at cellular resolution.

David W Knowles, Mark D Biggin

Abstract readReview
PubMed Full text at PMC Publisher
In one paragraph

Review in Wiley interdisciplinary reviews. Developmental biology. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. 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

2 authors.

David W KnowlesLife Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Mark D Biggin

Funding

Using transgenic assays to test, refine and validate the computational modelsP01GM099655 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI BIGGIN, MARK D · 2012 to 2016
$9.6M
A Morphology and Gene Expression Atlas for Drosophila EmbryogenesisR01GM085298 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI KNOWLES, DAVID W. · 2010 to 2017
$4.5M
NIGMS NIH HHS 1R01GM085298-01A1NIGMS NIH HHS P01 GM099655NIGMS NIH HHS R01 GM085298
6 · The paper itself

Abstract

Animals comprise dynamic three-dimensional arrays of cells that express gene products in intricate spatial and temporal patterns that determine cellular differentiation and morphogenesis. A rigorous understanding of these developmental processes requires automated methods that quantitatively record and analyze complex morphologies and their associated patterns of gene expression at cellular resolution. Here we summarize light microscopy-based approaches to establish permanent, quantitative datasets-atlases-that record this information. We focus on experiments that capture data for whole embryos or large areas of tissue in three dimensions, often at multiple time points. We compare and contrast the advantages and limitations of different methods and highlight some of the discoveries made. We emphasize the need for interdisciplinary collaborations and integrated experimental pipelines that link sample preparation, image acquisition, image analysis, database design, visualization, and quantitative analysis.

Indexed as

Atlases as TopicGene Expression Regulation, DevelopmentalAnimalsAutomation, LaboratoryBlastodermCell DifferentiationDatabases, FactualDrosophila melanogasterEukaryotic CellsGene Expression ProfilingImaging, Three-DimensionalMicroscopyMorphogenesis

Identifiers

PMID24123936
PMCPMC3819199

What OpenQuestion holds

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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.