KITP Program: Bio-Molecular Networks (Jan 6 - Mar 28, 2003)
Coordinators: D.Fygenson, A.Ruckenstein, B.Shraiman, L.Wolpert
Reading List 1: "Modules and Evolvability" Mini-Workshop
Andrew Murray
Hartwell, L.H., Hopfield, J.J., Leibler, S., and Murray, A.W. (1999). "From molecular to modular cell biology" 402, C47-52.
Kirschner, M. and J. Gerhart (1998). "Evolvability." Proc.Natl Acad Sci USA 95 (15): 8420-7. An introduction to the idea of evolvability (explored at much greater
Length) in their book: Cells, Embryos, And Evolution, 1997,Blackwell
Science
Two shortish texts that provide a good introduction to population
genetics: Maynard Smith's is more elegant, Hartl's more thorough:
Maynard Smith, J. Evolutionary Genetics, Oxford University Press.
Hartl, D. L. A primer of population genetics, Sinauer
Naama Barkai
Ihmels, J, Friedlander, G., Bergmann, S., Sarig, O., Ziv, Y., and Barkai, N., (2002). "Revealing Modular Organization in the Yeast Transcription Network". Nature Genetics, 31
Wen-Hsiung Li
Gu, Z., D. Nicolae, H. H.-S Lu, and W.-H. Li (2002). "Rapid divergence in expression between duplicate genes inferred from microarray gene expression data", Trend Genetics 18:609-613.
Gu, Z., L. M. Steinmetz, X. Gu, C. Scharfe, R. W. Davis, and W.-H. Li (2003).
"Role of duplicate genes in genetic robustness against null mutations", Nature 421:63-66.
Marie-Anne Felix
Felix, M.-A. (1999). "Evolution of developmental mechanisms in nematodes", J. Exp. Zool. (Mol. Dev. Evol.) 285, 3-18.
Delattre, M. and Felix, M.-A. (2001). "Microevolutionary studies in nematodes: a beginning", Bioessays 23, 807-819.
Erin O'Shea
Komeili, A., and O'Shea, E.K. (2001). "New Perspectives on Nuclear Transport", Ann. Rev. Genetics, 35, 341-364.
Wykoff, D.D., and O'Shea, E.K., (2002). "Phosphate transport and sensing in
Saccharomyces cerevisiae", Genetics, 159, 1491-1499.
Jonathan Weissman
Santoso, A, Chien, P, Osherovich, LZ, and Weissman, J (2000). "Molecular Basis of a Yeast Prion Species Barrier", Cell 100(1) 1-20
DePace, A. H., Santoso, A, Hillner, P., and Weissman, J. S. (1998). "A critical role for amino-terminal glutamine/asparagine repeats in the formation and propagation of a yeast prion", Cell, 93, 1241-1252.
Rutherford, S. L., and S. Lindquist (1998). "Hsp90 as a capacitor for
morphological evolution", Nature, 396: 336-42.
Adam Arkin
Synthetic Cell Biology Current Opinion in Biotechnology (preprint).
Rao CV, Arkin AP.,(2001). "Control motifs for intracellular regulatory networks" Rev. Biomed. 3:391-419.
McAdams HH, Arkin A., (2000). "Towards a circuit engineering discipline"
Curr. Biol.10(8):R318-20.