Euclidean distance geometry and applications

L Liberti, C Lavor, N Maculan, A Mucherino - SIAM review, 2014 - SIAM
Euclidean distance geometry is the study of Euclidean geometry based on the concept of
distance. This is useful in several applications where the input data consist of an incomplete …

Recent advances on the interval distance geometry problem

DS Gonçalves, A Mucherino, C Lavor… - Journal of Global …, 2017 - Springer
We discuss a discretization-based solution approach for a classic problem in global
optimization, namely the distance geometry problem (DGP). We focus our attention on a …

[图书][B] Euclidean distance geometry

L Liberti, C Lavor - 2017 - Springer
What do clocks, wireless devices, atoms, and submarines have in common? They move: the
clocks move time forward (so to speak), wireless devices usually move on a plane (like an …

An algorithm to enumerate all possible protein conformations verifying a set of distance constraints

A Cassioli, B Bardiaux, G Bouvier, A Mucherino… - BMC …, 2015 - Springer
Background The determination of protein structures satisfying distance constraints is an
important problem in structural biology. Whereas the most common method currently …

[HTML][HTML] Minimal NMR distance information for rigidity of protein graphs

C Lavor, L Liberti, B Donald, B Worley… - Discrete Applied …, 2019 - Elsevier
Abstract Nuclear Magnetic Resonance (NMR) experiments provide distances between
nearby atoms of a protein molecule. The corresponding structure determination problem is …

Clifford algebra and the discretizable molecular distance geometry problem

C Lavor, R Alves, W Figueiredo, A Petraglia… - Advances in Applied …, 2015 - Springer
Abstract Nuclear Magnetic Resonance experiments can provide distances between pairs of
atoms of a protein that are close enough and the problem is how to determine the 3D protein …

Assigned and unassigned distance geometry: applications to biological molecules and nanostructures

SJL Billinge, PM Duxbury, DS Gonçalves, C Lavor… - 4OR, 2016 - Springer
Considering geometry based on the concept of distance, the results found by Menger and
Blumenthal originated a body of knowledge called distance geometry. This survey covers …

Recent results on assigned and unassigned distance geometry with applications to protein molecules and nanostructures

SJL Billinge, PM Duxbury, DS Gonçalves… - Annals of Operations …, 2018 - Springer
In the 2 years since our last 4OR review of distance geometry methods with applications to
proteins and nanostructures, there has been rapid progress in treating uncertainties in the …

Tuning interval Branch-and-Prune for protein structure determination

B Worley, F Delhommel, F Cordier, TE Malliavin… - Journal of Global …, 2018 - Springer
Abstract The interval Branch and Prune (i BP) algorithm for obtaining solutions to the interval
Discretizable Molecular Distance Geometry Problem (i DMDGP) has proven itself as a …

[图书][B] An introduction to distance geometry applied to molecular geometry

C Lavor, L Liberti, WA Lodwick, TM da Costa - 2017 - Springer
Distance geometry (DG) is a distinct mathematical research area which includes
mathematics and computer science as fundamental components. The fundamental problem …