ZiF-Predict References

Dreier B, Beerli RR, Segal DJ, Flippin JD, Barbas CF: Development of zinc finger domains for recognition of the 5 '-ANN-3 ' family of DNA sequences and their use in the construction of artificial transcription factors. Journal of Biological Chemistry 2001, 276(31):29466-29478. [PUBMED]

Liu PQ, Rebar EJ, Zhang L, Liu Q, Jamieson AC, Liang YX, Qi H, Li PX, Chen BL, Mendel MC et al: Regulation of an endogenous locus using a panel of designed zinc finger proteins targeted to accessible chromatin regions - Activation of vascular endothelial growth factor A. Journal of Biological Chemistry 2001, 276(14):11323-11334. [PUBMED]

Ren D, Collingwood TN, Rebar EJ, Wolffe AP, Camp HS: PPARgamma knockdown by engineered transcription factors: exogenous PPARgamma2 but not PPARgamma1 reactivates adipogenesis. Genes Dev 2002, 16(1):27-32. [PUBMED]

Jouvenot Y, Ginjala V, Zhang L, Liu PQ, Oshimura M, Feinberg AP, Wolffe AP, Ohlsson R, Gregory PD: Targeted regulation of imprinted genes by synthetic zinc-finger transcription factors. Gene Ther 2003, 10(6):513-522. [PUBMED]

Jamieson AC, Cradick TJ, Guan B, Xiao H, Carroll PM: Controlling embryogenesis using engineered zinc fingers in Drosophila. Mol Ther 2004, 9:S118-S118.

Maeder ML, Thibodeau-Beganny S, Osiak A, Wright DA, Anthony RM, Eichtinger M, Jiang T, Foley JE, Winfrey RJ, Townsend JA et al: Rapid "Open-Source" engineering of customized zinc-finger nucleases for highly efficient gene modification. Mol Cell 2008, 31(2):294-301. [PUBMED]

Shi Y, Berg JM: Specific DNA-RNA hybrid binding by zinc finger proteins. Science 1995, 268(5208):282-284. [PUBMED]

Liu Q, Xia ZQ, Case CC: Validated zinc finger protein designs for all 16 GNN DNA triplet targets. Journal of Biological Chemistry 2002, 277(6):3850-3856. [PUBMED]

Segal DJ, Dreier B, Beerli RR, Barbas CF: Toward controlling gene expression at will: Selection and design of zinc finger domains recognizing each of the 5 '-GNN-3 ' DNA target sequences. P Natl Acad Sci USA 1999, 96(6):2758-2763. [PUBMED]

10.

Pruett-Miller SM, Connelly JP, Maeder ML, Joung JK, Porteus MH: Comparison of zinc finger nucleases for use in gene targeting in mammalian cells. Mol Ther 2008, 16(4):707-717. [PUBMED]

11.

Cornu TI, Thibodeau-Beganny S, Guhl E, Alwin S, Eichtinger M, Joung J, Cathomen T: DNA-binding specificity is a major determinant of the activity and toxicity of zinc-finger Nucleases. Mol Ther 2008, 16(2):352-358. [PUBMED]

12.

Beumer K, Bhattacharyya G, Bibikova M, Trautman JK, Carroll D: Efficient gene targeting in Drosophila with zinc-finger nucleases. Genetics 2006, 172(4):2391-2403. [PUBMED]

13.

Foley JE, Yeh JR, Maeder ML, Reyon D, Sander JD, Peterson RT, Joung JK: Rapid mutation of endogenous zebrafish genes using zinc finger nucleases made by Oligomerized Pool ENgineering (OPEN). PLoS One 2009, 4(2):e4348. [PUBMED]

14.

Townsend JA, Wright DA, Winfrey RJ, Fu FL, Maeder ML, Joung JK, Voytas DF: High-frequency modification of plant genes using engineered zinc-finger nucleases. Nature 2009, 459(7245):442-U161. [PUBMED]

15.

Porteus MH: Mammalian gene targeting with designed zinc finger nucleases. Mol Ther 2006, 13(2):438-446. [PUBMED]

16.

Blancafort P, Magnenat L, Barbas CF: Scanning the human genome with combinatorial transcription factor libraries. Nature Biotechnology 2003, 21(3):269-274. [PUBMED]

17.

Rebar EJ, Huang Y, Hickey R, Nath AK, Meoli D, Nath S, Chen BL, Xu L, Liang YX, Jamieson AC et al: Induction of angiogenesis in a mouse model using engineered transcription factors. Nat Med 2002, 8(12):1427-1432. [PUBMED]

18.

Zhang L, Spratt SK, Liu Q, Johnstone B, Qi H, Raschke EE, Jamieson AC, Rebar EJ, Wolffe AP, Case CC: Synthetic zinc finger transcription factor action at an endogenous chromosomal site - Activation of the human erythropoietin gene. Journal of Biological Chemistry 2000, 275(43):33850-33860. [PUBMED]

19.

Beerli RR, Schopfer U, Dreier B, Barbas CF: Chemically regulated zinc finger transcription factors. Journal of Biological Chemistry 2000, 275(42):32617-32627. [PUBMED]

20.

Choo Y, Klug A: Selection of DNA-Binding Sites for Zinc Fingers Using Rationally Randomized DNA Reveals Coded Interactions. P Natl Acad Sci USA 1994, 91(23):11168-11172. [PUBMED]

21.

Greisman HA, Pabo CO: A general strategy for selecting high-affinity zinc finger proteins for diverse DNA target sites. Science 1997, 275(5300):657-661. [PUBMED]

22.

Desjarlais JR, Berg JM: Use of a Zinc-Finger Consensus Sequence Framework and Specificity Rules to Design Specific DNA-Binding Proteins. P Natl Acad Sci USA 1993, 90(6):2256-2260. [PUBMED]

23.

Durai S, Bosley A, Abulencia AB, Chandrasegaran S, Ostermeier M: A bacterial one-hybrid selection system for interrogating zinc finger-DNA interactions. Comb Chem High Throughput Screen 2006, 9(4):301-311. [PUBMED]