BCH 512: DEVELOPMENTAL GENOMICS - Week 7 - Oct. 7 & 10, 2008

Instructor:  Marc Halfon

E-mail: mshalfon@buffalo.edu

Topic: Transcriptional Networks in Development

This week we turn our attention to tying some things together with a look at gene regulatory networks in development. We'll discuss how transcriptional regulatory modules integrate signal-induced and tissue-specific information and how we can build up network diagrams showing the various interactions among genes as development proceeds.

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Assigned reading:

This paper should be read for Tuesday's class:

Levine, M., and Davidson, E. H. (2005). From the Cover. Gene Regulatory Networks Special Feature: Gene regulatory networks for development. PNAS 102, 4936-4942.

A review by the experts

Zeitlinger, J., Zinzen, R. P., Stark, A., Kellis, M., Zhang, H., Young, R. A., and Levine, M. (2007). Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo. Genes Dev 21, 385-390.

Supplemental data for Zeitlinger et al.

(This will be the paper for discussion)

Recommended reading:

Davidson, E. H., and Erwin, D. H. (2006). Gene regulatory networks and the evolution of animal body plans. Science 311, 796-800.

Places developmental regulatory networks into an evolutionary context.

Davidson, E. H. (2006). The Regulatory Genome: Gene Regulatory Networks in Development and Evolution, 1st edn (Burlington, MA, Academic Press).

A book-length monograph.

Carroll, S. B., Grenier, J. K., and Weatherbee, S. D. (2005). From DNA to Diversity. Molecular Genetics and the Evolution of Animal Design, 2nd edn (Malden, MA, Blackwell Publishing).

Another book, a little less dense than the above.

Slides and lecture notes: will be posted here following class

Web resources: