A comparative evolutionary study of transcription networks (2008)
Sellerio, A. L., Bassetti, B., Isambert, H., Lagomarsino, M. Cosentino
We present a comparative analysis of large-scale topological and evolutionary properties of transcription networks in three species, the two distant bacteria E. coli and B. subtilis, and the yeast S....
Hierarchy and Feedback in the Evolution of the E. coli Transcription Network (2007)
Lagomarsino, M. Cosentino, Jona, P., Bassetti, B., Isambert, H.
The E.coli transcription network has an essentially feedforward structure, with, however, abundant feedback at the level of self-regulations. Here, we investigate how these properties emerged during...
Encoding folding paths of RNA switches (2007)
Xayaphoummine, A., Viasnoff, V., Harlepp, S., Isambert, H.
RNA co-transcriptional folding has long been suspected to play an active role in helping proper native folding of ribozymes and structured regulatory motifs in mRNA untranslated regions (UTRs). Yet,...
Encoding folding paths of RNA switches (2006)
Xayaphoummine, A., Viasnoff, V., Harlepp, S., Isambert, H.
RNA co-transcriptional folding has long been suspected to play an active role in helping proper native folding of ribozymes and structured regulatory motifs in mRNA untranslated regions. Yet, the...
Evolution of Protein Interaction Networks by Whole Genome Duplication and Domain Shuffling (2006)
Successive whole genome duplications have recently been firmly established in all major eukaryote kingdoms. It is not clear, however, how such dramatic evolutionary process has contributed to shape...
doi:10.1093/nar/gkl1036 Encoding folding paths of RNA switches (2006)
A. Xayaphoummine, V. Viasnoff, H. Isambert
RNA co-transcriptional folding has long been suspected to play an active role in helping proper native folding of ribozymes and structured regulatory motifs in mRNA untranslated regions (UTRs). Yet,...
Encoding folding paths of RNA switches (2006)
Xayaphoummine, A., Viasnoff, V., Harlepp, S., Isambert, H.
RNA co-transcriptional folding has long been suspected to play an active role in helping proper native folding of ribozymes and structured regulatory motifs in mRNA untranslated regions (UTRs). Yet,...
Encoding folding paths of RNA switches (2006)
Xayaphoummine, A., Viasnoff, V., Harlepp, S., Isambert, H.
RNA co-transcriptional folding has long been suspected to play an active role in helping proper native folding of ribozymes and structured regulatory motifs in mRNA untranslated regions (UTRs). Yet,...
A. Xayaphoummine, T. Bucher, H. Isambert
The Kinefold web server provides a web interface for stochastic folding simulations of nucleic acids on second to minute molecular time scales. Renaturation or co-transcriptional folding paths are...
Xayaphoummine, A., Bucher, T., Isambert, H.
The Kinefold web server provides a web interface for stochastic folding simulations of nucleic acids on second to minute molecular time scales. Renaturation or co-transcriptional folding paths are...
Xayaphoummine, A., Bucher, T., Thalmann, F., Isambert, H.
Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance. Here, we report that many pseudoknots can be...
Probing complex RNA structures by mechanical force (2003)
Harlepp, S., Marchal, T., Robert, J., Leger, J-F., Xayaphoummine, A., Isambert, H., ...
RNA secondary structures of increasing complexity are probed combining single molecule stretching experiments and stochastic unfolding/refolding simulations. We find that force-induced unfolding...
Xayaphoummine, A., Bucher, T., Thalmann, F., Isambert, H.
Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance. Here, we report that many pseudoknots can be...
Probing complex RNA structures by mechanical force (2003)
Harlepp, S., Marchal, T., Robert, J., Xayaphoummine, A., Isambert, H., ...
RNA secondary structures of increasing complexity are probed combining single molecule stretching experiments and stochastic unfolding/refolding simulations. We find that force-induced unfolding...
Xayaphoummine, A., Bucher, T., Thalmann, F., Isambert, H.
Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance. Here, we report that many pseudoknots can be...
Probing complex RNA structures by mechanical force (2003)
Harlepp, S., Marchal, T., Robert, J., Xayaphoummine, A., Isambert, H., ...
RNA secondary structures of increasing complexity are probed combining single molecule stretching experiments and stochastic unfolding/refolding simulations. We find that force-induced unfolding...
Xayaphoummine, A., Bucher, T., Thalmann, F., Isambert, H.
Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance. Here, we report that many pseudoknots can be...
Probing complex RNA structures by mechanical force (2003)
Harlepp, S., Marchal, T., Robert, J., Xayaphoummine, A., Isambert, H., ...
RNA secondary structures of increasing complexity are probed combining single molecule stretching experiments and stochastic unfolding/refolding simulations. We find that force-induced unfolding...
Xayaphoummine, A., Bucher, T., Thalmann, F., Isambert, H.
Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance. Here, we report that many pseudoknots can be...
Probing complex RNA structures by mechanical force (2003)
Harlepp, S., Marchal, T., Robert, J., Xayaphoummine, A., Isambert, H., ...
RNA secondary structures of increasing complexity are probed combining single molecule stretching experiments and stochastic unfolding/refolding simulations. We find that force-induced unfolding...
Dynamics and Rheology of Actin Solutions (1996)
Isambert Groupe De, H. Isambert, A. C. Maggs
We describe the dynamic behavior of semidilute solutions of actin filaments (a semiflexible polymer), pointing out some of the rheological regimes present in this biologically important system. We...
Xayaphoummine, A., Bucher, T., Thalmann, F., Isambert, H.
Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance. Here we report that many pseudoknots can be...
Xayaphoummine, A., Bucher, T., Isambert, H.
The Kinefold web server provides a web interface for stochastic folding simulations of nucleic acids on second to minute molecular time scales. Renaturation or co-transcriptional folding paths are...
Xayaphoummine, A., Bucher, T., Thalmann, F., Isambert, H.
Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance. Here we report that many pseudoknots can be...
Xayaphoummine, A., Bucher, T., Isambert, H.
The Kinefold web server provides a web interface for stochastic folding simulations of nucleic acids on second to minute molecular time scales. Renaturation or co-transcriptional folding paths are...
Encoding folding paths of RNA switches
Xayaphoummine, A., Viasnoff, V., Harlepp, S., Isambert, H.
RNA co-transcriptional folding has long been suspected to play an active role in helping proper native folding of ribozymes and structured regulatory motifs in mRNA untranslated regions (UTRs). Yet,...
Hierarchy and feedback in the evolution of the Escherichia coli transcription network
Cosentino Lagomarsino, M., Jona, P., Bassetti, B., Isambert, H.
The Escherichia coli transcription network has an essentially feedforward structure, with abundant feedback at the level of self-regulations. Here, we investigate how these properties emerged during...