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 discretizable molecular distance geometry problem

C Lavor, L Liberti, N Maculan, A Mucherino - European Journal of …, 2012 - Elsevier
The Molecular Distance Geometry Problem (MDGP) consists in finding an embedding in R3
of a nonnegatively weighted simple undirected graph with the property that the Euclidean …

[HTML][HTML] Fisher information distance: A geometrical reading

SIR Costa, SA Santos, JE Strapasson - Discrete Applied Mathematics, 2015 - Elsevier
This paper presents a geometrical approach to the Fisher distance, which is a measure of
dissimilarity between two probability distribution functions. The Fisher distance, as well as …

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 …

DiG-Park: a smart parking availability searching method using V2V/V2I and DGP-class problem

W Balzano, F Vitale - 2017 31st International Conference on …, 2017 - ieeexplore.ieee.org
Localization systems for outdoor areas using GNSS based systems (like GPS, GLONASS
and more) are nowadays widespread and commonly-available in devices like smartphones …

Distance geometry and data science

L Liberti - Top, 2020 - Springer
Data are often represented as graphs. Many common tasks in data science are based on
distances between entities. While some data science methodologies natively take graphs as …

Systematic exploration of protein conformational space using a distance geometry approach

TE Malliavin, A Mucherino, C Lavor… - Journal of Chemical …, 2019 - ACS Publications
The optimization approaches classically used during the determination of protein structure
encounter various difficulties, especially when the size of the conformational space is large …

[HTML][HTML] Discretization vertex orders in distance geometry

A Cassioli, O Günlük, C Lavor, L Liberti - Discrete Applied Mathematics, 2015 - Elsevier
When a weighted graph is an instance of the Distance Geometry Problem (DGP), certain
types of vertex orders (called discretization orders) allow the use of a very efficient, precise …

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 …

Low-resolution description of the conformational space for intrinsically disordered proteins

D Förster, J Idier, L Liberti, A Mucherino, JH Lin… - Scientific Reports, 2022 - nature.com
Intrinsically disordered proteins (IDP) are at the center of numerous biological processes,
and attract consequently extreme interest in structural biology. Numerous approaches have …