Computational Genomics Journal Club

Hardison, R., J. Slightom, D. Gumucio, M. Goodman, N. Stojanovic and W. Miller (1997) Locus control regions of mammalian beta-globin gene clusters: combining phylogenetic analyses and experimental results to gain functional insights. Gene 205, 73-94.

For a copy of this paper as well as copies of the background papers below, please email Nick Stojanovic. Copies will also be made availabe at the front desk of both 320 Charles Street and One Kendall Square by the end of the day on December 21, 1999.

Higgs, D.R. (1998) Do LCRs open chromatin domains? Cell 95(3), 299-302.

Bulger, M. and M. Groudine (1999) Looping versus linking: toward a model for long-distance gene activation. Genes Dev. 13(19), 2465-2477. (PDF)

Gumucio, D.L., H. Heilstedt-Williamson, T.A. Gray, S.A. Tarle, D.A. Shelton D.A. Tagle, J.L. Slightom, M. Goodman and F.S. Collins (1992) Phylogenetic footprinting reveals a nuclear protein which binds to silencer sequences in the human gamma and epsilon globin genes. Mol. Cell. Biology 12(11), 4919-4929.

For further introduction to the current controversy:

Epner E., A. Reik, D. Cimbora, A. Telling, M.A. Bender, S. Fiering, T. Enver, D.I. Martin, M. Kennedy, G. Keller and M. Groudine (1998) The beta-globin LCR is not necessary for an open chromatin structure or developmentally regulated transcription of the native mouse beta-globin locus. Mol. Cell 2(4), 447-455.

Grosveld, F. (1999) Activation by locus control regions? Curr. Opin. Genet. Dev. 9(2), 152-157.(PDF)

For a good review on the related issue of eukaryotic promoter finding:

Fickett, J.W. and A.G. Hatzigeorgiou (1997) Eukaryotic promoter recognition. Genome Res. 7(9), 861-878. (PDF)