Welcome to the new version of CaltechAUTHORS. Login is currently restricted to library staff. If you notice any issues, please email coda@library.caltech.edu
Published December 11, 2018 | public
Book Section - Chapter

Methods for the experimental and computational analysis of gene regulatory networks in sea urchins


The discovery of gene regulatory networks (GRNs) has opened a gate to access the genomic mechanisms controlling development. GRNs are systems of transcriptional regulatory circuits that control the differential specification of cell fates during development by regulating gene expression. The experimental analysis of GRNs involves a collection of methods, each revealing aspects of the overall control process. This review provides an overview of experimental and computational methods that have been successfully applied for solving developmental GRNs in the sea urchin embryo. The key in this approach is to obtain experimental evidence for functional interactions between transcription factors and regulatory DNA. In the second part of this review, a more generally applicable strategy is discussed that shows a path from experimental evidence to annotation of regulatory linkages to the generation of GRN models.

Additional Information

© 2019 Elsevier. Available online 11 December 2018. I am very grateful to Deanna Thomas for generating the figures and to Dr. Eric Davidson for countless discussions on this subject. This work was supported by National Institutes of Health Grant HD 037105.

Additional details

August 22, 2023
January 14, 2024