General

Carroll, S.B. 2005. Endless Forms Most Beautiful: The New Science of Evo Devo and the Making of the Animal Kingdom. New York: W. W. Norton & Company.

Granneman, S., and S.J. Baserga. 2006. Crosstalk in gene expression: Coupling and co-regulation of rDNA processing. Curr. Opin. Cell Biol. 17:281–286.

Rubin, G.M., and E.T. Lewis. 2000. A brief history of Drosophila’s contributions to genome research. Science 287:2216–2218.

Posttranscriptional Control inside the Nucleus

Bentley, D. 2005. Rules of engagement: Co-transcriptional recruitment of pre-mRNA processing factors. Curr. Opin. Cell Biol. 17:251–256.

Blencowe, B.J. 2006. Alternative splicing: New insights from global analyses. Cell 126:37–47.

Kornblihtt, A.R., I.E. Schor, M. Allõ, G. Dujardin, E. Petrillo, and M.J. Muñoz. 2013. Alternative splicing, a pivotal step between eukaryotic transcription and translation. Nat. Rev. Mol. Cell Biol. 14:153–165.

Neeman, Y., D. Dahary, and K. Nishikura. 2006. Editor meets silencer: Crosstalk between RNA editing and RNA interference. Nat. Rev. Mol. Cell Biol. 7:919–931.

Translational Control in the Cytoplasm

Fabian, M.R., N. Sonenberg, and W. Filipowicz. 2010. Regulation of mRNA translation and stability by micro-RNAs. Annu. Rev. Biochem. 79:351–379.

Gray, N.K., and M. Wickens. 1998. Control of translation initiation in animals. Annu. Rev. Cell Dev. Biol. 14: 399–458.

Hartmann-Petersen, R., M. Seeger, and C. Gordon. 2003. Transferring substrates to the 26S proteasome. Trends Biochem. Sci. 28:26–31.

Norbury, C.J. 2013. Cytoplasmic RNA: A case of the tail wagging the dog. Nat. Rev. Cell Mol. Biol. 14:643–653.

The Large-Scale Regulation of Groups of Genes

Goodrich, J.A., and J.F. Kugel. 2006. Non-coding RNA regulators of RNA polymerase II transcription. Nat. Rev. Mol. Cell Biol. 7:612–616.

Green, R., and J.A. Doudna. 2006. RNAs regulate biology. ACS Chem. Biol. 1:335–338.

Kapp, L.D., and J.R. Lorsch. 2004. The molecular mechanics of eukaryotic translation. Annu. Rev. Biochem. 73:657–704.

Liu, Q., and Z. Paroo. 2010. Biochemical principles of small RNA pathways. Annu. Rev. Biochem. 79:295–319.

RNA Interference

Cerutti, H. 2003. RNA interference: Traveling in the cell and gaining functions? Trends Genet. 19:9–46.

Crunkhorn, S. 2010. RNA interference: Clinical gene-silencing success. Nat. Rev. Drug Discov. 9:359.

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ENCODE Project Consortium. 2012. An integrated encyclopedia of DNA elements in the human genome. Nature 489:57–74.

Kamath, R.S., A.G. Fraser, Y. Dong, G. Poulin, R. Durbin, M. Gotta, A. Kanapink, N. Le Bot, S. Moreno, M. Sohrmann, et al. 2003. Systematic functional analysis of the Caenorhabditis elegans genome using RNAi. Nature 421:231–237.

Luteijn, M.J., and R.F. Ketting. 2013. PIWI-interacting RNAs: From generational to trans-generational epigenetics. Nat. Rev. Genet. 14:523–534.

Morris, K.V., and J.S. Mattick. 2014. The rise of regulatory RNA. Nat. Rev. Genet. 15:423–437.

Putting It All Together: Gene Regulation in Development

Blow, N. 2008. In search of common ground. Nature 451:855–858.

Buganin, Y., D.A. Faddah, and R. Jaenisch. 2013. Mechanisms and models of somatic cell reprogramming. Nat. Rev. Genet. 14:427–439.

Farley, B.M., and S.P. Ryder. 2008. Regulation of maternal mRNAs in early development. Crit. Rev. Biochem. Mol. Biol. 43:135–162.

Gönczy, P. 2008. Mechanisms of asymmetric cell division: Flies and worms pave the way. Nat. Rev. Mol. Cell Biol. 9:355–366.

Lander, A.D. 2013. How cells know where they are. Science 339:923–927.

Morrison, S.J., and J. Kimble. 2006. Asymmetric and symmetric stem-cell divisions in development and cancer. Nature 441:1068–1074.

Nüsslein-Volhard, C., and E. Wieschaus. 1980. Mutations affecting segment number and polarity in Drosophila. Nature 287:795–801.

Passier, R., L.W. van Laake, and C.L. Mummery. 2008. Stem-cell-based therapy and lessons from the heart. Nature 453:322–329.

Pera, M.F. 2008. Stem cells: A new year and a new era. Nature 451:135–136.

Tajbakhsh, S., P. Rocheteau, and I. Le Roux. 2010. Asymmetric cell divisions and asymmetric cell fates. Annu. Rev. Cell Dev. Biol. 25:671–699.

Takai, Y., J. Miyoshi, W. Ikeda, and H. Ogita. 2008. Nectins and nectin-like molecules: Roles in contact inhibition of cell movement and proliferation. Nat. Rev. Mol. Cell Biol. 9:603–615.

Finale: Molecular Biology, Developmental Biology, and Evolution

Carroll, S.B. 2005. Evolution at two levels: On genes and form. PLoS Biol. 3:1159–1166.

Carroll, S.B., B. Prud’homme, and N. Gompel. 2008. Regulating evolution. Sci. Am. 298(5):60–67.

Haerty, W., and C.P. Ponting. 2014. No gene in the genome makes sense except in the light of evolution. Annu. Rev. Genomics Hum. Genet. 15:71–92.

Prud’homme, B., N. Gompel, and S.B. Carroll. 2007. Emerging principles of regulatory evolution. Proc. Natl. Acad. Sci. USA 104:8605–8612.

Raff, R.A. 2000. Evo-devo: The evolution of a new discipline. Nat. Rev. Genet. 1:74–79.

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