A genomic regulatory network for development - PubMed
- ️Tue Jan 01 2002
Review
. 2002 Mar 1;295(5560):1669-78.
doi: 10.1126/science.1069883.
Jonathan P Rast, Paola Oliveri, Andrew Ransick, Cristina Calestani, Chiou-Hwa Yuh, Takuya Minokawa, Gabriele Amore, Veronica Hinman, Cesar Arenas-Mena, Ochan Otim, C Titus Brown, Carolina B Livi, Pei Yun Lee, Roger Revilla, Alistair G Rust, Zheng jun Pan, Maria J Schilstra, Peter J C Clarke, Maria I Arnone, Lee Rowen, R Andrew Cameron, David R McClay, Leroy Hood, Hamid Bolouri
Collaborators, Affiliations
- PMID: 11872831
- DOI: 10.1126/science.1069883
Review
A genomic regulatory network for development
Eric H Davidson et al. Science. 2002.
Abstract
Development of the body plan is controlled by large networks of regulatory genes. A gene regulatory network that controls the specification of endoderm and mesoderm in the sea urchin embryo is summarized here. The network was derived from large-scale perturbation analyses, in combination with computational methodologies, genomic data, cis-regulatory analysis, and molecular embryology. The network contains over 40 genes at present, and each node can be directly verified at the DNA sequence level by cis-regulatory analysis. Its architecture reveals specific and general aspects of development, such as how given cells generate their ordained fates in the embryo and why the process moves inexorably forward in developmental time.
Similar articles
-
Revilla-i-Domingo R, Minokawa T, Davidson EH. Revilla-i-Domingo R, et al. Dev Biol. 2004 Oct 15;274(2):438-51. doi: 10.1016/j.ydbio.2004.07.008. Dev Biol. 2004. PMID: 15385170
-
The endoderm gene regulatory network in sea urchin embryos up to mid-blastula stage.
Peter IS, Davidson EH. Peter IS, et al. Dev Biol. 2010 Apr 15;340(2):188-99. doi: 10.1016/j.ydbio.2009.10.037. Epub 2009 Nov 3. Dev Biol. 2010. PMID: 19895806 Free PMC article.
-
Gene regulatory network controlling embryonic specification in the sea urchin.
Oliveri P, Davidson EH. Oliveri P, et al. Curr Opin Genet Dev. 2004 Aug;14(4):351-60. doi: 10.1016/j.gde.2004.06.004. Curr Opin Genet Dev. 2004. PMID: 15261650 Review.
-
A provisional regulatory gene network for specification of endomesoderm in the sea urchin embryo.
Davidson EH, Rast JP, Oliveri P, Ransick A, Calestani C, Yuh CH, Minokawa T, Amore G, Hinman V, Arenas-Mena C, Otim O, Brown CT, Livi CB, Lee PY, Revilla R, Schilstra MJ, Clarke PJ, Rust AG, Pan Z, Arnone MI, Rowen L, Cameron RA, McClay DR, Hood L, Bolouri H. Davidson EH, et al. Dev Biol. 2002 Jun 1;246(1):162-90. doi: 10.1006/dbio.2002.0635. Dev Biol. 2002. PMID: 12027441
-
Specification of cell fate in the sea urchin embryo: summary and some proposed mechanisms.
Davidson EH, Cameron RA, Ransick A. Davidson EH, et al. Development. 1998 Sep;125(17):3269-90. doi: 10.1242/dev.125.17.3269. Development. 1998. PMID: 9693132 Review.
Cited by
-
Hurley D, Araki H, Tamada Y, Dunmore B, Sanders D, Humphreys S, Affara M, Imoto S, Yasuda K, Tomiyasu Y, Tashiro K, Savoie C, Cho V, Smith S, Kuhara S, Miyano S, Charnock-Jones DS, Crampin EJ, Print CG. Hurley D, et al. Nucleic Acids Res. 2012 Mar;40(6):2377-98. doi: 10.1093/nar/gkr902. Epub 2011 Nov 24. Nucleic Acids Res. 2012. PMID: 22121215 Free PMC article.
-
Lobo D, Levin M. Lobo D, et al. PLoS Comput Biol. 2015 Jun 4;11(6):e1004295. doi: 10.1371/journal.pcbi.1004295. eCollection 2015 Jun. PLoS Comput Biol. 2015. PMID: 26042810 Free PMC article.
-
Dynamic spatial pattern formation in the sea urchin embryo.
Riaz SS, Mackey MC. Riaz SS, et al. J Math Biol. 2014 Feb;68(3):581-608. doi: 10.1007/s00285-012-0640-8. Epub 2013 Jan 25. J Math Biol. 2014. PMID: 23355118
-
Ch Ho E, Buckley KM, Schrankel CS, Schuh NW, Hibino T, Solek CM, Bae K, Wang G, Rast JP. Ch Ho E, et al. Immunol Cell Biol. 2016 Oct;94(9):861-874. doi: 10.1038/icb.2016.51. Epub 2016 May 19. Immunol Cell Biol. 2016. PMID: 27192936 Free PMC article.
-
BTR: training asynchronous Boolean models using single-cell expression data.
Lim CY, Wang H, Woodhouse S, Piterman N, Wernisch L, Fisher J, Göttgens B. Lim CY, et al. BMC Bioinformatics. 2016 Sep 6;17(1):355. doi: 10.1186/s12859-016-1235-y. BMC Bioinformatics. 2016. PMID: 27600248 Free PMC article.
Publication types
MeSH terms
LinkOut - more resources
Full Text Sources
Other Literature Sources
Miscellaneous