THE DNA-PROTEOME: RECENT ADVANCES TOWARDS ESTABLISHING THE PROTEINDNA INTERACTION SPACE

E. Grotewold and H. Auer

View Full Paper

References

  1. [1] M. Raices, R.E. Verdun, S.A. Compton, C.I. Haggblom, J.D.Griffith, A. Dillin, & J. Karlseder, C. elegans telomeres containG-strand and C-strand overhangs that are bound by distinctproteins, Cell, 132, 2008, 745–757.
  2. [2] G. Mittler, F. Butter, & M. Mann, A SILAC-based DNAprotein interaction screen that identifies candidate bindingproteins to functional DNA elements, Genome Research, 19,2009, 284–293.
  3. [3] E. Birney, J.A. Stamatoyannopoulos, A. Dutta, R. Guigo,T.R. Gingeras, E.H. Margulies, Z. Weng, M. Snyder, E.T.Dermitzakis, R.E. Thurman, et al., Identification and analysisof functional elements in 1% of the human genome by theENCODE pilot project, Nature, 447, 2007, 799–816.
  4. [4] S. Fredriksson, M. Gullberg, J. Jarvius, C. Olsson, K. Pietras,S.M. Gustafsdottir, A. Ostman and U. Landegren, Protein detectionusing proximity-dependent DNA ligation assays, NatureBiotechnology, 20, 2002, 473–477.
  5. [5] E. Theodorou, G. Dalembert, C. Heffelfinger, E. White, S.Weissman, L. Corcoran, & M. Snyder, A high throughputembryonic stem cell screen identifies Oct-2 as a bifunctionalregulator of neuronal differentiation, Genes and Development,23, 2009, 575–588.
  6. [6] S. Kaplan, A. Bren, E. Dekel, & U. Alon, The incoherentfeed-forward loop can generate non-monotonic input functionsfor genes, Molecular Systems Biology, 4, 2008, 203.
  7. [7] M.D. Wilson, N.L.B.-Morais, D. Schmidt, C.M. Conboy, L.Vanes, V.L. Tybulewicz, E.M. Fisher, S. Tavare, & D.T.Odom, Species-specific transcription in mice carrying humanchromosome 21, Science, 322, 2008, 434–438.
  8. [8] K. Morohashi & E. Grotewold, A systems approach revealsregulatory circuitry for Arabidopsis trichome initiation by theGL3 and GL1 selectors, PLoS Genetics, 5, 2009, e1000396.
  9. [9] B. Deplancke, A. Mukhopadhyay, W. Ao, A.M. Elewa, C.A.Grove, N.J. Martinez, R. Sequerra, L.D.-Stamm, J.S.R.-Hoyes,I.A. Hope, et al., A gene-centered C. elegans protein–DNAinteraction network, Cell, 125, 2006, 1193–1205.
  10. [10] R.C. Allshire & G.H. Karpen, Epigenetic regulation of centromericchromatin: Old dogs, new tricks?, Nature ReviewsGenetics, 9, 2008, 923–937.

Important Links:

Go Back