ArticleCell2019
Optimal Decoding of Cellular Identities in a Genetic Network.
Article in Cell, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 88 papers.
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.
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.
Who cites it
88 citing papers in PubMed, 194 citations in OpenAlex.
- Maternal patterning in early Drosophila embryos: how much information can single maternal gradients supply?Development (Cambridge, England) · 2026Article
- Neighborhood-informed positional information for precise cell identity specification.Molecular systems biology · 2026Article
- Interpretable decoding of cell fate from a snapshot of combinatorial signaling.bioRxiv : the preprint server for biology · 2026Article
- Optimality as a framework for understanding developmental robustness.Trends in cell biology · 2026Review
- Entropy Bathtub for Living Systems: A Markovian Perspective.Entropy (Basel, Switzerland) · 2026Article
- DynamicAtlas: a morphodynamic atlas for Drosophila development.Nature methods · 2026Article
- Article
- Single-cell dynamics reveal a stress-induced decision between hypertrophy and apoptosis in neonatal rat cardiomyocytes.Journal of molecular and cellular cardiology plus · 2025Article
- Searching for physical principles of morphogenesis.Development (Cambridge, England) · 2025Review
- A conserved coupling of transcriptional ON and OFF periods underlies bursting dynamics.Nature structural & molecular biology · 2025Article
- Coping with uncertainty: Challenges for robust pattern formation in dynamical tissues.Seminars in cell & developmental biology · 2025Review
- ChemotaxingbioRxiv : the preprint server for biology · 2025Article
- ChemotaxingArXiv · 2025Article
- Optimization and variability can coexist.ArXiv · 2025Article
- Optogenetic control of Nodal signaling patterns.Development (Cambridge, England) · 2025Article
- A microfluidic platform for anterior-posterior human endoderm patterning via countervailing morphogen gradientsiScience · 2025Article
- Deriving a genetic regulatory network from an optimization principle.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Controlling noise with self-organized resetting.Communications physics · 2025Article
- Dynamics of positional information in the vertebrate neural tube.Journal of the Royal Society, Interface · 2024Article
- Stable developmental patterns of gene expression without morphogen gradients.PLoS computational biology · 2024Article
28 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 3 institutions in 3 countries.
Funding
Abstract
In developing organisms, spatially prescribed cell identities are thought to be determined by the expression levels of multiple genes. Quantitative tests of this idea, however, require a theoretical framework capable of exposing the rules and precision of cell specification over developmental time. We use the gap gene network in the early fly embryo as an example to show how expression levels of the four gap genes can be jointly decoded into an optimal specification of position with 1% accuracy. The decoder correctly predicts, with no free parameters, the dynamics of pair-rule expression patterns at different developmental time points and in various mutant backgrounds. Precise cellular identities are thus available at the earliest stages of development, contrasting the prevailing view of positional information being slowly refined across successive layers of the patterning network. Our results suggest that developmental enhancers closely approximate a mathematically optimal decoding strategy.
Indexed as
Identifiers
What OpenQuestion holds
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.