Dear Kinefold users, please cite:
A. Xayaphoummine, T. Bucher & H. Isambert,
Kinefold web server for RNA/DNA folding path and structure
prediction including pseudoknots and knots,
Nucleic Acid Res., 33, 605-610 (2005),
(pdf format,
supp_mat1,
supp_mat2,
supp_mat3).
Other Kinefold related Publications:
Cayrol B, Nogues C, Dawid A, Sagi I, Silberzan P & Isambert H
A nanostructure made of a bacterial non-coding RNA,
J Am Chem Soc, in press (2009).
Isambert H
The jerky and knotty dynamics of RNA,
Methods, 49, 189-196 (2009),
(pdf format).
Dawid A, Cayrol B & Isambert H
RNA synthetic biology inspired from bacteria: construction of transcription attenuators under antisense regulation,
Phys. Biol., 6 (2), 25007 (2009),
(pdf format).
A. Xayaphoummine, V. Viasnoff, S. Harlepp & H. Isambert,
Encoding folding paths of RNA switches,
Nucleic Acid Res., 35(2):614-622 (2007),
(pdf format).
V. Viasnoff, A. Meller & H. Isambert,
DNA nanomechanical switches under folding kinetics control,
Nano Lett., 6, 101-104 (2006),
(pdf format).
A. Xayaphoummine, T. Bucher, F. Thalmann & H. Isambert,
Prediction and statistics of pseudoknots in RNA
structures using exactly clustered stochastic simulations,
Proc. Natl. Acad. Sci. USA, 100, 15310-15315 (2003),
(pdf format).
S. Harlepp, T. Marchal, J. Robert, J-F. Leger,
A. Xayaphoummine, H. Isambert & D. Chatenay,
Probing complex RNA structures by mechanical force,
Eur. Phys. J. E, 12, 605-615 (2003),
(pdf format)
H. Isambert & E.D. Siggia,
Modeling RNA folding paths with pseudoknots: application to hepatitis delta virus ribozyme
Proc. Natl. Acad. Sci. USA, 97 (12), 6515 (2000). (pdf format).
This paper was featured in the Editors' Choice, Science, 288, 1935 (2000).