Franca Fraternali

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Prediction of Protein-Protein Interactions: Looking Through the Kaleidoscope

Anna Laddach, Sun Sook Chung, Franca Fraternali, 2019, Encyclopedia of Bioinformatics and Computational Biology.

Understanding the structural details of APOBEC3-DNA interactions using graph-based representations

Franca Fraternali, Joseph Chi-Fung Ng, F. Fraternali, 2020, Current research in structural biology.

Handbook of Statistical Systems Biology

Franca Fraternali, Jens Kleinjung, Anthony C. C. Coolen, 2011 .

Parameter optimized surfaces (POPS): analysis of key interactions and conformational changes in the ribosome

Franca Fraternali, Luigi Cavallo, F. Fraternali, 2002, Nucleic Acids Res..

TITINdb—a computational tool to assess titin’s role as a disease gene

Anna Laddach, Franca Fraternali, Mathias Gautel, 2017, Bioinform..

MinSet: a general approach to derive maximally representative database subsets by using fragment dictionaries and its application to the SCOP database

Alessandro Pandini, Franca Fraternali, Laura Bonati, 2007, Bioinform..

Short loop motif profiling of protein interaction networks in acute myeloid leukaemia

Anna Laddach, Sun Sook Chung, Franca Fraternali, 2018, bioRxiv.

PinSnps: structural and functional analysis of SNPs in the context of protein interaction networks

Franca Fraternali, Hui-Chun Lu, Julián Herrera Braga, 2016, Bioinform..

Gsatools: Analysis of Allosteric Communication and Functional Local Motions using a Structural Alphabet

Alessandro Pandini, Franca Fraternali, Arianna Fornili, 2014 .

Molecular Simulations Guidelines for Biological Nanomaterials: From Peptides to Membranes.

Franca Fraternali, Irene Marzuoli, F. Fraternali, 2021, Methods in molecular biology.

The Rosetta Modeling Suite and CS-Rosetta

Franca Fraternali, Joseph Chi-Fung Ng, Annika Keshu, 2020 .

Modelling Biological Networks via Tailored Random Graphs

Franca Fraternali, Anthony C. C. Coolen, Anthony C. C. Coolen, 2011 .

In silico identification of rescue sites by double force scanning

Alessandro Pandini, Matteo Tiberti, Franca Fraternali, 2017, Bioinform..

Dynamic domain threading

William R Taylor, Franca Fraternali, Inge Jonassen, 2006, Proteins.

POPSCOMP: an automated interaction analysis of biomolecular complexes

Franca Fraternali, Jens Kleinjung, F. Fraternali, 2005, Nucleic Acids Res..

POPS: a fast algorithm for solvent accessible surface areas at atomic and residue level

Franca Fraternali, Jens Kleinjung, Luigi Cavallo, 2003, Nucleic Acids Res..

BRepertoire: a user-friendly web server for analysing antibody repertoire data

Franca Fraternali, Catherine Townsend, Alexander Stewart, 2018, Nucleic Acids Res..

TOWARDS BIOINFORMATICS TOOLS TO ASCERTAIN THE AUTHENTICITY OF TRADITIONAL FOOD

Franca Fraternali, Raffaele Coppola, G Pannella, 2012 .

GSATools: analysis of allosteric communication and functional local motions using a structural alphabet

Alessandro Pandini, Franca Fraternali, Arianna Fornili, 2013, Bioinform..

Self-assembly at the multi-scale level: challenges and new avenues for inspired synthetic biology modelling

Franca Fraternali, Chris D. Lorenz, Irene Marzuoli, 2017 .

Multi-Scale Simulations Provide Supporting Evidence for the Hypothesis of Intramolecular Protein Translocation in GroEL/GroES Complexes

Franca Fraternali, Daan Frenkel, Ivan Coluzza, 2008, PLoS Comput. Biol..

Detection of Allosteric Signal Transmission by Information-Theoretic Analysis of Protein Dynamics

Alessandro Pandini, Franca Fraternali, Arianna Fornili, 2012 .

Implicit Solvation Parameters Derived from Explicit Water Forces in Large-Scale Molecular Dynamics Simulations

Franca Fraternali, Jane R. Allison, Jens Kleinjung, 2012, Journal of chemical theory and computation.

Plasticity of influenza haemagglutinin fusion peptides and their interaction with lipid bilayers.

Franca Fraternali, Jens Kleinjung, J. Skehel, 2005, Biophysical journal.

A refined, efficient mean solvation force model that includes the interior volume contribution.

Wilfred F van Gunsteren, Franca Fraternali, Jane R. Allison, 2011, The journal of physical chemistry. B.

Mutation of the RAD51C gene in a Fanconi anemia–like disorder

Franca Fraternali, Nazneen Rahman, Christopher G Mathew, 2010, Nature Genetics.

Protein Networks Reveal Detection Bias and Species Consistency When Analysed by Information-Theoretic Methods

Franca Fraternali, Anthony C. C. Coolen, Alessia Annibale, 2010, PloS one.

Molecular interactions of ASPP1 and ASPP2 with the p53 protein family and the apoptotic promoters PUMA and Bax

Franca Fraternali, Roger George, John E. Ladbury, 2008, Nucleic acids research.

Josephin domain of ataxin‐3 contains two distinct ubiquitin‐binding sites

Franca Fraternali, Giuseppe Nicastro, Annalisa Pastore, 2009, Biopolymers.

Bridging topological and functional information in protein interaction networks by short loops profiling

Alessandro Pandini, Sun Sook Chung, Franca Fraternali, 2015, Scientific Reports.

PDBe-KB: a community-driven resource for structural and functional annotations

Alfonso Valencia, Karel Berka, Jaroslav Koča, 2019, Nucleic Acids Res..

Inhibitor-induced HER2-HER3 heterodimerisation promotes proliferation through a novel dimer interface

Franca Fraternali, Roger George, Tony Ng, 2018, eLife.

Significant Differences in Physicochemical Properties of Human Immunoglobulin Kappa and Lambda CDR3 Regions

Franca Fraternali, David Kipling, Deborah K. Dunn-Walters, 2016, Front. Immunol..

Identification of Essential Proteins Based on Ranking Edge-Weights in Protein-Protein Interaction Networks

Enrico Blanzieri, Yanchun Liang, Wei Du, 2014, PloS one.

Identifying the genetic basis of variation in cell behaviour in human iPS cell lines from healthy donors

Nicholas M. Luscombe, Anna Laddach, Franca Fraternali, 2018, bioRxiv.

Protein-water interactions in MD simulations: POPS/POPSCOMP solvent accessibility analysis, solvation forces and hydration sites.

Franca Fraternali, Arianna Fornili, Nesrine Chakroun, 2012, Methods in molecular biology.

Structural versatility of peptides containing Cα,α-dialkylated glycines. An X-ray diffraction study of six 1-aminocyclopropane-1-carboxylic acid rich peptides☆

Vincenzo Barone, Franca Fraternali, Claudio Toniolo, 1989 .

Prion and water: tight and dynamical hydration sites have a key role in structural stability.

Chandra S Verma, Franca Fraternali, A. Zagari, 2005, Proceedings of the National Academy of Sciences of the United States of America.

Mutants of the tumour suppressor p53 L1 loop as second-site suppressors for restoring DNA binding to oncogenic p53 mutations: structural and biochemical insights.

Franca Fraternali, F. Fraternali, P. Nikolova, 2010, The Biochemical journal.

Interaction of malaria parasite‐inhibitory antibodies with the merozoite surface protein MSP119 by computational docking

Franca Fraternali, Jens Kleinjung, F. Fraternali, 2006, Proteins.

Thermal unfolding simulations of apo‐calmodulin using leap‐dynamics

Franca Fraternali, Jens Kleinjung, F. Fraternali, 2003, Proteins.

Conformational transitions of a dipeptide in water: Effects of imposed pathways using umbrella sampling techniques

Franca Fraternali, W. V. van Gunsteren, F. Fraternali, 1994 .

Structural versatility of peptides from Cα,α-dialkylated glycines: a conformational energy calculation and X-ray diffraction study of homopeptides from 1-aminocyclopentane-1-carboxylic acid☆

Vincenzo Barone, Franca Fraternali, Claudio Toniolo, 1988 .

Design and application of implicit solvent models in biomolecular simulations

Franca Fraternali, Jens Kleinjung, F. Fraternali, 2014, Current opinion in structural biology.