101 citations · 359 across the 16 of their papers we have counts for
16 papers
Insights into the role of dynamical features in protein complex formation: the case of SARS-CoV-2 spike binding with ACE2
Greta Grassmann, Mattia Miotto, Francesca Alessandrini +4
The functionality of protein-protein complexes is closely tied to the strength of their interactions, making the evaluation of binding affinity a central focus in structural biolog…
Compact assessment of molecular surface complementarities enhances neural network-aided prediction of key binding residues
Greta Grassmann, Lorenzo Di Rienzo, Giancarlo Ruocco +2
Predicting interactions between biomolecules, such as protein-protein complexes, remains a challenging problem. Despite the many advancements done so far, the performances of docki…
Zepyros: A webserver to evaluate the shape complementarity of protein-protein interfaces
Mattia Miotto, Lorenzo Di Rienzo, Leonardo Bo' +2
Shape complementarity of molecular surfaces at the interfaces is a well-known characteristic of protein-protein binding regions, and it is critical in influencing the stability of…
High throughput interactome determination via sulfur anomalous scattering
Mattia Miotto, Edoardo Milanetti, Riccardo Mincigrucci +2
We propose a novel approach to detect the binding between proteins making use of the anomalous diffraction of natively present heavy elements inside the molecule 3D structure. In p…
Osmolyte-Induced Protein Stability Changes Explained by Graph Theory
Mattia Miotto, Nina Warner, Giancarlo Ruocco +3
Enhanced stabilisation of protein structures via the presence of inert excipients is a key mechanism adopted both by physiological systems and in biotechnological applications. Whi…
Electrostatic complementarity at the interface drives transient protein-protein interactions
Greta Grassmann, Lorenzo Di Rienzo, Giorgio Gosti +4
Understanding the molecular mechanisms driving the binding between bio-molecules is a crucial challenge in molecular biology. In this respect, characteristics like the preferential…
Prediction of gene expression time series and structural analysis of gene regulatory networks using recurrent neural networks
Michele Monti, Jonathan Fiorentino, Edoardo Milanetti +2
Methods for time series prediction and classification of gene regulatory networks (GRNs) from gene expression data have been treated separately so far. The recent emergence of atte…
A computational approach to investigate TDP-43 C-terminal fragments aggregation in Amyotrophic Lateral Sclerosis
Greta Grassmann, Mattia Miotto, Lorenzo Di Rienzo +7
Many of the molecular mechanisms underlying the pathological aggregation of proteins observed in neurodegenerative diseases are still not fully understood. Among the diseases assoc…
Investigating the side-chain structural organization behind the stability of protein folding and binding
Fausta Desantis, Mattia Miotto, Lorenzo Di Rienzo +2
What are the molecular mechanisms that dictate protein-protein binding stability and whether those are related to the ones behind protein fold stability are still largely open ques…
New algorithm to determine a minimal representation of the molecular surface
Greta Grassmann, Mattia Miotto, Lorenzo Di Rienzo +3
Most proteins perform their biological function by interacting with one or more molecular partners. In this respect, characterizing the features of the molecular surface, especiall…
Shape Complementarity Optimization of Antibody-Antigen Interfaces: the Application to SARS-CoV-2 Spike Protein
Alfredo De Lauro, Lorenzo Di Rienzo, Mattia Miotto +3
Many factors influence biomolecules binding, and its assessment constitutes an elusive challenge in computational structural biology. In this respect, the evaluation of shape compl…
Molecular mechanisms behind anti SARS-CoV-2 action of lactoferrin
Mattia Miotto, Lorenzo Di Rienzo, Leonardo Bò +3
Despite the huge effort to contain the infection, the novel SARS-CoV-2 coronavirus has rapidly become pandemics, mainly due to its extremely high human-to-human transmission capabi…
Does blood type affect the COVID-19 infection pattern?
Mattia Miotto, Lorenzo Di Rienzo, Giorgio Gosti +2
Among the many aspects that characterize the COVID-19 pandemic, two seem particularly challenging to understand: (i) the great geographical differences in the degree of virus conta…
Structural analysis of SARS-CoV-2 and prediction of the human interactome
Andrea Vandelli, Michele Monti, Edoardo Milanetti +2
Specific elements of viral genomes regulate interactions within host cells. Here, we calculated the secondary structure content of >2500 coronaviruses and computed >100000 human pr…
In-Silico evidence for two receptors based strategy of SARS-CoV-2
Edoardo Milanetti, Mattia Miotto, Lorenzo Di Rienzo +3
We propose a novel numerical method able to determine efficiently and effectively the relationship of complementarity between portions of proteins surfaces. This innovative and gen…
Simulated Epidemics in 3D Protein Structures to Detect Functional Properties
Mattia Miotto, Lorenzo Di Rienzo, Pietro Corsi +3
The outcome of an epidemic is closely related to the network of interactions between the individuals. Likewise, protein functions depend on the 3D arrangement of their residues and…