950 citations · 3.2k across the 72 of their papers we have counts for
14 papers · 1 filter
Improved RNA pseudoknots prediction and classification using a new topological invariant
Graziano Vernizzi, Henri Orland, A. Zee
We propose a new topological characterization of RNA secondary structures with pseudoknots based on two topological invariants. Starting from the classic arc-representation of RNA…
The unknotted strands of life: knots are very rare in RNA structures
Cristian Micheletti, Marco Di Stefano, Henri Orland
The ongoing effort to detect and characterize physical entanglement in biopolymers has so far established that knots are present in many globular proteins and also abound in viral…
McGenus: A Monte Carlo algorithm to predict RNA secondary structures with pseudoknots
M. Bon, C. Micheletti, H. Orland
We present McGenus, an algorithm to predict RNA secondary structures with pseudoknots. The method is based on a classification of RNA structures according to their topological genu…
TT2NE: A novel algorithm to predict RNA secondary structures with pseudoknots
Michael Bon, Henri Orland
We present TT2NE, a new algorithm to predict RNA secondary structures with pseudoknots. The method is based on a classification of RNA structures according to their topological gen…
Dominant folding pathways of a peptide chain, from ab-initio quantum-mechanical simulations
S. a Beccara, P. Faccioli, G. Garberoglio +3
Using the Dominant Reaction Pathways method, we perform an ab-initio quantum-mechanical simulation of a conformational transition of a peptide chain. The method we propose makes it…
Dominant Folding Pathways of a Beta-Hairpin
Pietro Faccioli, Alice Lonardi, Henri Orland
We use the Dominant Reaction Pathway (DRP) approach to study the dynamics of the folding of a beta-hairpin, within a model which accounts for both native and non-native interaction…