ZiFiT Targeter Version 4.2


Citations


If you use ZiFiT Please Reference:

Sander, J.D., Zaback, P.Z., Joung, J.K., Voytas, D.F., Dobbs, D. (2007) Zinc Finger Targeter (ZiFiT): an engineered zinc finger/target site design tool. Nucleic Acids Res, 35,W599-605; doi: 10.1093/nar/gkm349

Sander, J.D., Maeder, M.L., Reyon, D., Voytas, D.F., Joung, J.K., Dobbs, D. (2010) ZiFiT (Zinc Finger Targeter): an updated zinc finger engineering tool. Nucleic Acids Res, 38:W462-468; doi: doi:10.1093/nar/gmk319


Engineering CRISPR-Cas/RNA-Guided Nucleases (RGNs) :

Hwang WY, Fu Y, Reyon D, Maeder ML, Tsai SQ, Sander JD, Peterson RT, Yeh JR, Joung JK. (2013) Efficient genome editing in zebrafish using a CRISPR-Cas system. Nat Biotechnol. 2013 Mar;31(3):227-9. doi: 10.1038/nbt.2501.

Mali P, Yang L, Esvelt KM, Aach J, Guell M, DiCarlo JE, Norville JE, Church GM.(2013) RNA-guided human genome engineering via Cas9. Science. 2013 Feb 15;339(6121):823-6. doi: 10.1126/science.1232033.


Engineering TALENs by REAL/REAL-Fast/FLASH:

Reyon D, Khayter C, Regan MR, Joung JK, Sander JD (2012) Engineering designer transcription activator-like effector nucleases (TALENs) by REAL or REAl-Fast assembly. Curr Protoc Mol Biol. 2012 Oct; Chapter 12:Unit 12.15) doi: 10.1002/0471142727.mb1215s100.

Cade L, Reyon D, Hwang WY, Tsai SQ, Patel S, Khayter C, Joung JK, Sander JD, Peterson RT, Yeh JR (2012) Highly efficient generation of heritable zebrafish gene mutations using homo- and heterodimeric TALENs. Nucleic Acids Res. 2012 Sept, 40:8001-10 doi: 10.1093/nar/gks518.

Reyon D, Tsai SQ, Khayter C, Foden J, Sander JD, Joung JK (2012) FLASH assembly of TALENs for high-throughput genome editing. Nat Biotechnol. 2012 May, 30:460-5 doi: 10.1038/nbt.2170.

Sander JD, Cade L, Khayter C, Reyon D, Peterson RT, Joung JK, Yeh JR. (2011) Targeted gene disruption in somatic zebrafish cells using engineered TALENs. Nat Biotechnol. 2011 Aug 5;29:697-8. doi: 10.1038/nbt.1934.


Engineering by CoDA & OPEN

Sander, J.D., Dahlborg, E.J., Goodwin, M.J., Cade, L., Zhang, F., Cifuentes, D., Curtin, S.J., Blackburn, J.S., Thibodeau-Beganny, S., Qi, Y., Pierick, C.J., Hoffman, E., Maeder, M.L., Khayter, C., Reyon, D., Dobbs, D., Langenau, D.M., Stupar, R.M., Giraldez, A.J., Voytas, D.F., Peterson, R.T., Yeh, J.-R.J., Joung, J.K. (2011) Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA). Nat. Methods; doi: 10.1038/nmeth.1542.


Sander, J.D., Reyon, D., Maeder, M.L., Foley, J.E., Thibodeau-Beganny, S., Li, X., Regan, M.R., Dahlborg, E.J., Goodwin, M.J., Fu, F., Voytas, D.F., Joung, J.K., Dobbs, D. (2010) Predicting success of oligomerized pool engineering (OPEN) for zinc finger target site sequences. BMC Bioinformatics, 11:543


Sander, J.D., Maeder, M.L., Reyon, D., Voytas, D.F., Joung, J.K., Dobbs, D. (2010) ZiFiT (Zinc Finger Targeter): an updated zinc finger engineering tool. Nucleic Acids Research, 38:W462-468;


Maeder, M.L., Thibodeau-Beganny, S., Sander, J.D., Voytas, D.F., Joung ,J.K. (2009) Oligomerized pool engineering (OPEN): an 'open-source' protocol for making customized zinc-finger arrays. Nat. Protocols, 4:1471-501.


Sander, JD.*, Zaback, P.*, Joung, JK., Voytas, DF., Dobbs, D. (2009) An affinity-based scoring scheme for predicting DNA-binding activity of modularly assembled zinc-finger proteins. Nucleic Acids Research, 37(2), 506-515


Maeder, ML., Thibodeau-Beganny, S., Osiak, A., Wright, DA., Anthony, RM., Eichtinger,M., Jiang, T., Foley, JE., Winfrey, RJ., Townsend, JA., Unger-Wallace, E., Sander, JD., Muller-Lerch, F., Fu, F., Pearlberg, j., Gobel, C., Dassie, JP., Pruett-Miller, SM., Porteus, MH., Sgroi, DC., Iafrate, JA., Dobbs, D., McCray, PB. Jr, Cathomen, T., Voytas, DF., Joung, JK. (2008) Rapid “open-source” engineering of custom zinc-finger nucleases for highly efficient gene modification Molecular Cell 31, 294-301


Ramirez, C.L., Foley, J.E., Wright, D.A., Müller-Lerch, F., Rahman, S.H., Cornu, T.I., Winfrey, R.J., Sander, J.D., Fu, F., Townsend, J.A., Cathomen, T., Voytas, D.F., Joung, J.K. (2008) Unexpected failure rates for modular assembly of engineered zinc-fngers. Nature Methods, 5:374


Sander, J.D., Zaback, P.Z., Joung, J.K., Voytas, D.F., Dobbs, D. (2007) Zinc Finger Targeter (ZiFiT): an engineered zinc finger/target site design tool. Nucleic Acids Research, 35,W599-605; doi: 10.1093/nar/gkm349