ArticleCell2020
MorphoSeq: Full Single-Cell Transcriptome Dynamics Up to Gastrulation in a Chordate.
Article in Cell, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
What it found
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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.
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.
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Who cites it
25 citing papers in PubMed, 56 citations in OpenAlex.
- Persistent homology-based segmentation tool for membrane images.Cell reports methods · 2026Article
- Marine Model Organisms for Mechanobiology Studies.Results and problems in cell differentiation · 2026Review
- Assessing the relative contributions of mosaic and regulatory developmental modes from single-cell trajectories.PLoS computational biology · 2025Article
- Primordial germ cell specification and early developmental cell states in Pacific oyster.BMC genomics · 2025Article
- Cooperative short- and long-range interactions enable robust symmetry breaking and axis formation.bioRxiv : the preprint server for biology · 2025Article
- Nanoplastic-Induced Developmental Toxicity in Ascidians: Comparative Analysis of Chorionated and DechorionatedJournal of xenobiotics · 2025Article
- Physical modeling of embryonic transcriptomes identifies collective modes of gene expression.bioRxiv : the preprint server for biology · 2024Article
- Article
- MarkerMap: nonlinear marker selection for single-cell studies.NPJ systems biology and applications · 2024Article
- Marine Invertebrates One Cell at A Time: Insights from Single-Cell Analysis.Integrative and comparative biology · 2023Review
- Canalized gene expression during development mediates caste differentiation in ants.Nature ecology & evolution · 2022Article
- Dynamics ofProceedings of the National Academy of Sciences of the United States of America · 2022Article
- Multi-layered regulation of neuroectoderm differentiation by retinoic acid in a primitive streak-like context.Stem cell reports · 2022Article
- Single-cell RNA sequencing of theeLife · 2021Article
- Multiplexing Methods for Simultaneous Large-Scale Transcriptomic Profiling of Samples at Single-Cell Resolution.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2021Review
- Single-cell analysis of cell fate bifurcation in the chordate Ciona.BMC biology · 2021Article
- Biodiversity-based development and evolution: the emerging research systems in model and non-model organisms.Science China. Life sciences · 2021Review
- Article
- Neuromesodermal Lineage Contribution to CNS Development in Invertebrate and Vertebrate Chordates.Genes · 2021Review
- Single-cell profiling for advancing birth defects research and prevention.Birth defects research · 2021Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single-cell RNA sequencing (scRNA-seq) provides a leap forward in resolving cellular diversity and developmental trajectories but fails to comprehensively delineate the spatial organization and precise cellular makeup of individual embryos. Here, we reconstruct from scRNA-seq and light sheet imaging data a canonical digital embryo that captures the genome-wide gene expression trajectory of every single cell at every cell division in the 18 lineages up to gastrulation in the ascidian Phallusia mammillata. By using high-coverage scRNA-seq, we devise a computational framework that stratifies single cells of individual embryos into cell types without prior knowledge. Unbiased transcriptome data analysis mapped each cell's physical position and lineage history, yielding the complete history of gene expression at the genome-wide level for every single cell in a developing embryo. A comparison of individual embryos reveals both extensive reproducibility between symmetric embryo sides and a large inter-embryonic variability due to small differences in embryogenesis timing.
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Registered trials
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.