ArticleNature methods2021
A 4D single-cell protein atlas of transcription factors delineates spatiotemporal patterning during embryogenesis.
Article in Nature methods, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 57 papers.
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Who cites it
57 citing papers in PubMed, 92 citations in OpenAlex.
- Regulatory architecture controlling terminal differentiation of an interoceptive paraneuron in Caenorhabditis elegans.Development (Cambridge, England) · 2026Article
- Intrinsic and non-cell-autonomous roles for the neurodevelopmental syndrome-linked transcription factor UNC-3/EBF.Nature communications · 2026Article
- Regulatory architecture controlling terminal differentiation of an interoceptive paraneuron inbioRxiv : the preprint server for biology · 2026Article
- Reciprocal E-cadherin signaling aligns apical surfaces between neighboring epithelial tissues to complete the C. elegans digestive tract.Current biology : CB · 2026Article
- A panoramic view of the expression and function of the Doublesex/DMRT gene family inScience advances · 2026Article
- Interlocked transcription factor feedback loops maintain and restore adult touch sensation.Cell reports · 2026Article
- A conserved C. elegans zinc finger homeodomain protein, ZFH-2, is continuously required for the structural integrity and function of the alimentary tract and gonad.Development (Cambridge, England) · 2026Article
- PHA-4/FoxA controls the function of pharyngeal and extrapharyngeal enteric neurons inGenes & development · 2026Article
- A conservedbioRxiv : the preprint server for biology · 2026Article
- Radial-glia-to-astrocyte trans-differentiation and astrocyte transcriptional convergence are coordinated by CEH-43/DLX inbioRxiv : the preprint server for biology · 2026Article
- AUTOENCODIX: a generalized and versatile framework to train and evaluate autoencoders for biological representation learning and beyond.Nature computational science · 2026Article
- Article
- Intrinsic and non-cell autonomous roles for a neurodevelopmental syndrome-linked transcription factor.bioRxiv : the preprint server for biology · 2025Article
- EmbSAM: cell boundary localization and Segment Anything Model for fast images of developing embryos.Communications biology · 2025Article
- Assessing the relative contributions of mosaic and regulatory developmental modes from single-cell trajectories.PLoS computational biology · 2025Article
- PHA-4/FoxA controls the function of pharyngeal and extrapharyngeal enteric neurons ofbioRxiv : the preprint server for biology · 2025Article
- Reaffirming the value of model organisms in training scientific minds.Nature cell biology · 2025Article
- Pervasive homeobox gene function in the male-specific nervous system of Caenorhabditis elegans.Development (Cambridge, England) · 2025Article
- Lineage-resolved analysis of embryonic gene expression evolution inScience (New York, N.Y.) · 2025Article
- Cell lineage-resolved embryonic morphological map reveals signaling associated with cell fate and size asymmetry.Nature communications · 2025Article
Corrections and comments
- Commented on by
- Erratum issued
Authors and funding
9 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Complex biological processes such as embryogenesis require precise coordination of cell differentiation programs across both space and time. Using protein-fusion fluorescent reporters and four-dimensional live imaging, we present a protein expression atlas of transcription factors (TFs) mapped onto developmental cell lineages during Caenorhabditis elegans embryogenesis, at single-cell resolution. This atlas reveals a spatiotemporal combinatorial code of TF expression, and a cascade of lineage-specific, tissue-specific and time-specific TFs that specify developmental states. The atlas uncovers regulators of embryogenesis, including an unexpected role of a skin specifier in neurogenesis and the critical function of an uncharacterized TF in convergent muscle differentiation. At the systems level, the atlas provides an opportunity to model cell state-fate relationships, revealing a lineage-dependent state diversity within functionally related cells and a winding trajectory of developmental state progression. Collectively, this single-cell protein atlas represents a valuable resource for elucidating metazoan embryogenesis at the molecular and systems levels.
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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.