ArticleProceedings of the National Academy of Sciences of the United States of America2012
Synthetic in vivo validation of gene network circuitry.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 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.
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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
11 citing papers in PubMed, 23 citations in OpenAlex.
- A stage and anatomy ontology for embryogenesis in indirect-developing echinoderms.Development (Cambridge, England) · 2026Article
- Article
- Gene regulatory divergence amongst echinoderms underlies appearance of pigment cells in sea urchin development.Developmental biology · 2023Article
- Conditional specification of endomesoderm.Cells & development · 2021Review
- Article
- Bacterial artificial chromosomes as recombinant reporter constructs to investigate gene expression and regulation in echinoderms.Briefings in functional genomics · 2018Review
- Engineering nucleic acid structures for programmable molecular circuitry and intracellular biocomputation.Nature chemistry · 2017Review
- A new software package for predictive gene regulatory network modeling and redesign.Journal of computational biology : a journal of computational molecular cell biology · 2013Article
- Notch and Nodal control forkhead factor expression in the specification of multipotent progenitors in sea urchin.Development (Cambridge, England) · 2013Article
- Effects of cadmium exposure on sea urchin development assessed by SSH and RT-qPCR: metallothionein genes and their differential induction.Molecular biology reports · 2013Article
- Diversification of oral and aboral mesodermal regulatory states in pregastrular sea urchin embryos.Developmental biology · 2013Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
Embryonic development is controlled by networks of interacting regulatory genes. The individual linkages of gene regulatory networks (GRNs) are customarily validated by functional cis-regulatory analysis, but an additional approach to validation is to rewire GRN circuitry to test experimentally predictions derived from network structure. Here we use this synthetic method to challenge specific predictions of the sea urchin embryo endomesoderm GRN. Expression vectors generated by in vitro recombination of exogenous sequences into BACs were used to cause elements of a nonskeletogenic mesoderm GRN to be deployed in skeletogenic cells and to detect their effects. The result of reengineering the regulatory circuitry in this way was to divert the developmental program of these cells from skeletogenesis to pigment cell formation, confirming a direct prediction of the GRN. In addition, the experiment revealed previously undetected cryptic repression functions.
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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.