Rita Casadio

发表

Grammatical-Restrained Hidden Conditional Random Fields for Bioinformatics applications

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2009, Algorithms for Molecular Biology.

Machine-Learning Methods to Predict Protein Interaction Sites in Folded Proteins

Piero Fariselli, Damiano Piovesan, Castrense Savojardo, 2011, CIBB.

PONGO: a web server for multiple predictions of all-alpha transmembrane proteins

Arne Elofsson, Piero Fariselli, David Jones, 2006, Nucleic Acids Res..

Is There an Optimal Substitution Matrix for Contact Prediction with Correlated Mutations?

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2011, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Divide and Conquer Strategies for Protein Structure Prediction

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2011, Mathematical Approaches to Polymer Sequence Analysis and Related Problems.

The LIBI Grid Platform an International Laboratory for Bioinformatics

Ernesto Picardi, Italo Epicoco, Sandro Fiore, 2008 .

Community Detection within Clusters Helps Large Scale Protein Annotation - Preliminary Results of Modularity Maximization for the BAR+ Database

Piero Fariselli, Damiano Piovesan, Pier Luigi Martelli, 2013, BIOINFORMATICS.

The prediction of organelle-targeting peptides in eukaryotic proteins with Grammatical-Restrained Hidden Conditional Random Fields

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2013, Bioinform..

K-Fold: a tool for the prediction of the protein folding kinetic order and rate

Emidio Capriotti, Rita Casadio, E. Capriotti, 2007, Bioinform..

Proceedings of the 5th International conference on Algorithms in Bioinformatics

Rita Casadio, Gene Myers, 2005 .

Faculty Opinions recommendation of Enhancing gene set enrichment using networks.

Rita Casadio, 2019 .

ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing

Paola Bonizzoni, Mattia D'Antonio, Ernesto Picardi, 2010, Nucleic Acids Res..

Prediction of Protein-Protein Interacting Sites: How to Bridge Molecular Events to Large Scale Protein Interaction Networks

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2009, CMSB.

Protein Functional Annotation

Pier Luigi Martelli, Rita Casadio, Giuseppe Profiti, 2019, Encyclopedia of Bioinformatics and Computational Biology.

On the critical review of five machine learning-based algorithms for predicting protein stability changes upon mutation

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2019, Briefings Bioinform..

In silico prediction of the structure of membrane proteins: Is it feasible?

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2003, Briefings Bioinform..

BaCelLo: a balanced subcellular localization predictor

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2006, ISMB.

On the Reconstruction of Three-dimensional Protein Structures from Contact Maps

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2009, Algorithms.

FT-COMAR: fault tolerant three-dimensional structure reconstruction from protein contact maps

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2008, Bioinform..

NET-GE: a web-server for NETwork-based human gene enrichment

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2016, Bioinform..

Fast overlapping of protein contact maps by alignment of eigenvectors

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2010, Bioinform..

The WWWH of remote homolog detection: The state of the art

Piero Fariselli, Emidio Capriotti, Rita Casadio, 2006, Briefings Bioinform..

Prediction of the Number of Residue Contacts in Proteins

Piero Fariselli, Rita Casadio, R. Casadio, 2000, ISMB.

High Throughput Comparison of Prokaryotic Genomes

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2007, PPAM.

A machine learning approach to predict cancer-related mutations

Emidio Capriotti, Rita Casadio, Remo Calabrese, 2008 .

Predicting protein structure and function from sequence with BAR, the Bologna Annotation Resource.

Rita Casadio, R. Casadio, 2009 .

A New Protein Representation Based on Fragment Contacts: Towards an Improvement of Contact Maps Predictions

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2008, CIBB.

ConSeq: the identification of functionally and structurally important residues in protein sequences

Piero Fariselli, Tal Pupko, Rita Casadio, 2004, Bioinform..

The pros and cons of predicting protein contact maps.

Piero Fariselli, Emidio Capriotti, Pier Luigi Martelli, 2008, Methods in molecular biology.

Large scale genome comparison in a GRID infrastructure

Rita Casadio, R. Casadio, 2007 .

The Identification of Locally Ordered Features an Completely unaligned Genomic Sequences by using an Unsupervised Neural Classifier

Piero Fariselli, Rita Casadio, P. Arrigo, 1996, German Conference on Bioinformatics.

Software systems for automatic annotation and discovery of pharmacologically-relevant proteins at the genome level.

Rita Casadio, 2006 .

TRAMPLE: the transmembrane protein labelling environment

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2005, Nucleic Acids Res..

MemPype: a pipeline for the annotation of eukaryotic membrane proteins

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2011, Nucleic Acids Res..

Cover Picture

Emidio Capriotti, Rita Casadio, Fabio Grandi, 2018, Math. Log. Q..

A Shannon entropy‐based filter detects high‐ quality profile–profile alignments in searches for remote homologues

Piero Fariselli, Emidio Capriotti, Rita Casadio, 2004, Proteins.

An ENSEMBLE machine learning approach for the prediction of all-alpha membrane proteins

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2003, ISMB.

International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies, BIOTECHNO 2008, June 29 - July 5, 2008, Bucharest, Romania

Ovidiu Daescu, Daniela Stan Raicu, Rita Casadio, 2008, BIOTECHNO.

How to inherit statistically validated annotation within BAR+ protein clusters

Piero Fariselli, Damiano Piovesan, Pier Luigi Martelli, 2013, BMC Bioinformatics.

Algorithms in Bioinformatics, 5th International Workshop, WABI 2005, Mallorca, Spain, October 3-6, 2005, Proceedings

Rita Casadio, Gene Myers, R. Casadio, 2005, WABI.

BCov: a method for predicting β-sheet topology using sparse inverse covariance estimation and integer programming

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2013, Bioinform..

Guest Editor's Introduction to the Special Issue on Computational Biology and Bioinformatics -- Part 1

Rita Casadio, 2006, TCBB.

MaxSubSeq: an algorithm for segment-length optimization. The case study of the transmembrane spanning segments

Piero Fariselli, Davide Marchignoli, Pier Luigi Martelli, 2003, Bioinform..

Improving the prediction of helix-residue contacts in all-alpha proteins

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2008 .

Extended and Robust Protein Sequence Annotation over Conservative Nonhierarchical Clusters: The Case Study of the ABC Transporters

Piero Fariselli, Damiano Piovesan, Pier Luigi Martelli, 2013, JETC.

The prediction of protein secondary structure with a Cascade Correlation Learning Architecture of neural networks

Piero Fariselli, Rita Casadio, Francesco Vivarelli, 1997, Neural Computing & Applications.

Bioinformatics in Italy: BITS2006, the third annual meeting of the Italian Society of Bioinformatics

Graziano Pesole, Manuela Helmer-Citterich, Rita Casadio, 2007, BMC Bioinformatics.

Proof-of-concept implementation of human genomics variant calling pipeline using BioContainers and Galaxy

Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, 2019 .

A sequence-profile-based HMM for predicting and discriminating beta barrel membrane proteins

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2002, ISMB.

INPS: predicting the impact of non-synonymous variations on protein stability from sequence

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2015, Bioinform..

SUS-BAR: a database of pig proteins with statistically validated structural and functional annotation

Piero Fariselli, Damiano Piovesan, Pier Luigi Martelli, 2013, Database J. Biol. Databases Curation.

Fault Tolerance for Large Scale Protein 3D Reconstruction from Contact Maps

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2007, WABI.

LGANN: a parallel system combining a local genetic algorithm and neural networks for the prediction of secondary structure of proteins

Piero Fariselli, Rita Casadio, Renato Campanini, 1995, Comput. Appl. Biosci..

Prediction of Structurally-Determined Coiled-Coil Domains with Hidden Markov Models

Piero Fariselli, Rita Casadio, Anders Krogh, 2007, BIRD.

The Bologna Annotation Resource (BAR 3.0): improving protein functional annotation

Pier Luigi Martelli, Rita Casadio, Giuseppe Profiti, 2017, Nucleic Acids Res..

Machine learning and the prediction of protein structure: the state of the art

Piero Fariselli, Emidio Capriotti, Pier Luigi Martelli, 2006 .

SChloro: directing Viridiplantae proteins to six chloroplastic sub-compartments

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2016, Bioinform..

A Protein Structure Prediction Service in the ProGenGrid System

Maria Mirto, Sandro Fiore, Giovanni Aloisio, 2008, HealthGrid.

RCNPRED: prediction of the residue co-ordination numbers in proteins

Piero Fariselli, Rita Casadio, 2001, Bioinform..

Prediction of the Bonding State of Cysteine Residues in Proteins with Machine-Learning Methods

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2010, CIBB.

Improved prediction of the number of residue contacts in proteins by recurrent neural networks

Piero Fariselli, Pierre Baldi, Gianluca Pollastri, 2001, ISMB.

HTP: a neural network-based method for predicting the topology of helical transmembrane domains in proteins

Piero Fariselli, Rita Casadio, R. Casadio, 1996, Comput. Appl. Biosci..

AlignBucket: a tool to speed up 'all-against-all' protein sequence alignments optimizing length constraints

Piero Fariselli, Rita Casadio, Giuseppe Profiti, 2015, Bioinform..

Integrating ELIXIR Italy with ELIXIR Interoperability platform activities

Castrense Savojardo, Rita Casadio, Giuseppe Profiti, 2018 .

The 4th Bologna Winter School: Hot Topics in Structural Genomics

Rita Casadio, 2003, Comparative and functional genomics.

The human "magnesome": detecting magnesium binding sites on human proteins

Damiano Piovesan, Pier Luigi Martelli, Rita Casadio, 2012, BMC Bioinformatics.

High Throughput Protein Similarity Searches in the LIBI Grid Problem Solving Environment

Piero Fariselli, Italo Epicoco, Maria Mirto, 2007, ISPA Workshops.

BUSCA: an integrative web server to predict subcellular localization of proteins

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2018, Nucleic Acids Res..

Prediction of the disulfide‐bonding state of cysteines in proteins at 88% accuracy

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2002, Protein science : a publication of the Protein Society.

CCHMM_PROF: a HMM-based coiled-coil predictor with evolutionary information

Piero Fariselli, Rita Casadio, Anders Krogh, 2009, Bioinform..

A Data Base of Minimally Frustrated Alpha-Helical Segments Extracted from Proteins According to an Entropy Criterion

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 1999, ISMB.

MIMO: an efficient tool for molecular interaction maps overlap

Gang Wu, Pier Luigi Martelli, Rita Casadio, 2013, BMC Bioinformatics.

DeepMito: accurate prediction of protein sub-mitochondrial localization using convolutional neural networks

Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, 2019, Bioinform..

Prediction of Signal Peptide in Proteins with Neural Networks

Piero Fariselli, Rita Casadio, Giacomo Finocchiaro, 2003, WIRN.

Bologna Winter School 2009- Machine Learning and Computational Biology:New paradigms for a new science - Bologna, February 2-6, 2009

Rita Casadio, R. Casadio, 2009 .

I-Mutant: predicting protein stability upon mutation

Piero Fariselli, Emidio Capriotti, Rita Casadio, 2004, ISMB 2004.

BAR-PLUS: the Bologna Annotation Resource Plus for functional and structural annotation of protein sequences

Piero Fariselli, Damiano Piovesan, Pier Luigi Martelli, 2011, Nucleic Acids Res..

ISPRED4: interaction sites PREDiction in protein structures with a refining grammar model

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2017, Bioinform..

A neural-network-based method for predicting protein stability changes upon single point mutations

Piero Fariselli, Emidio Capriotti, Rita Casadio, 2004, ISMB/ECCB.

Protein structure prediction: the state of the art

Rita Casadio, 2004 .

Disulfide Connectivity Prediction with Extreme Learning Machines

Piero Fariselli, Monther Alhamdoosh, Castrense Savojardo, 2011, BIOINFORMATICS.

Algorithms in Bioinformatics: lecture notes in bioinformaticsProceedings of the 5th International Workshop on algorithms in bioinformatics

Rita Casadio, Gene Myers, 2005 .

ELIXIR-IT Industry engagement: overview of the work in progress

Graziano Pesole, Giancarlo Mauri, Rita Casadio, 2019 .

Predicting protein stability changes from sequences using support vector machines

Piero Fariselli, Emidio Capriotti, Rita Casadio, 2005, ECCB/JBI.

Reconstruction of 3D Structures From Protein Contact Maps

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2008, IEEE ACM Trans. Comput. Biol. Bioinform..

Reconstruction of 3D Structures from Protein Contact Maps

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2007, ISBRA.

BETAWARE: a machine-learning tool to detect and predict transmembrane beta-barrel proteins in prokaryotes

Piero Fariselli, Castrense Savojardo, Rita Casadio, 2013, Bioinform..

DeepSig: deep learning improves signal peptide detection in proteins

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2017, Bioinform..

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics): Preface

Gad M. Landau, Steven Skiena, Roded Sharan, 2006, WABI 2012.

A neural network method to improve prediction of protein-protein interaction sites in heterocomplexes

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2003, 2003 IEEE XIII Workshop on Neural Networks for Signal Processing (IEEE Cat. No.03TH8718).

Systematic analysis of human kinase genes: a large number of genes and alternative splicing events result in functional and structural diversity

Luciano Milanesi, Rita Casadio, Nunzio D'Agostino, 2005, BMC Bioinformatics.

A graph theoretic approach to protein structure selection

Piero Fariselli, Rita Casadio, Luciano Margara, 2009, Artif. Intell. Medicine.

Protein Sequence Annotation by means of Community Detection

Piero Fariselli, Damiano Piovesan, Pier Luigi Martelli, 2015, IWBBIO.

A three-state prediction of single point mutations on protein stability changes

Piero Fariselli, Emidio Capriotti, Rita Casadio, 2007, BMC Bioinformatics.

Prediction of disulfide connectivity in proteins

Piero Fariselli, Rita Casadio, R. Casadio, 2001, Bioinform..

INPS-MD: a web server to predict stability of protein variants from sequence and structure

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2016, Bioinform..

Progress and challenges in predicting protein-protein interaction sites

Alfonso Valencia, Piero Fariselli, Rita Casadio, 2008, Briefings Bioinform..

Blurring contact maps of thousands of proteins: what we can learn by reconstructing 3D structure

Piero Fariselli, Maria Mirto, Giovanni Aloisio, 2011, BioData Mining.

Improving Coiled-Coil Prediction with Evolutionary Information

Piero Fariselli, Rita Casadio, Lisa Bartoli, 2009, CIBB.

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Tapio Salakoski, Feng Zhang, Paolo Fontana, 2019, Genome Biology.

SPEPlip: the detection of signal peptide and lipoprotein cleavage sites

Piero Fariselli, Rita Casadio, Giacomo Finocchiaro, 2003, Bioinform..

On the biases in predictions of protein stability changes upon variations: the INPS test case

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2018, Bioinform..

Transmembrane Domain Prediction

Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, 2019, Encyclopedia of Bioinformatics and Computational Biology.

Predicting Free Energy Contribution to the Conformational Stability of Folded Proteins From the Residue Sequence with Radial Basis Function Networks

Piero Fariselli, Rita Casadio, Francesco Vivarelli, 1995, ISMB.

A pipeline for predicting the function of the AFP/CAFA 2014 targets atthe Bologna Biocomputing Group

Pier Luigi Martelli, Rita Casadio, Giuseppe Profiti, 2014, ISMB 2014.

BIOINFORMATICS FOR SYSTEMS & SYNTHETIC BIOLOGYNew approaches and algorithms to cope with the future of Biological ScienceBOLOGNA WINTER SCHOOL 2007 ( 18-23/02/2007) Bologna - Italy

Rita Casadio, R. Casadio, 2007 .

Guest Editor's Introduction to the Special Section on Computational Biology and Bioinformatics (WABI) -- Part 2

Rita Casadio, 2007, TCBB.

On the Upper Bound of the Prediction Accuracy of Residue Contacts in Proteins with Correlated Mutations: The Case Study of the Similarity Matrices

Piero Fariselli, Rita Casadio, Pietro Di Lena, 2009, WABI.

Prediction of the disulfide bonding state of cysteines in proteins with hidden neural networks.

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2002, Protein engineering.

Predicting protein stability changes from sequence with Support Vector Machines

Piero Fariselli, Emidio Capriotti, Rita Casadio, 2005 .

The posterior-Viterbi: a new decoding algorithm for hidden Markov models

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2005 .

Automatic learning tools applied to the problem of predicting protein protein interaction

Rita Casadio, R. Casadio, 2004 .

DNCBLAST: a parallel BLAST for computer clusters

Rita Casadio, P. Fariselli, D. Marchignoli, 2003 .

BetAware-Deep: An Accurate Web Server for Discrimination and Topology Prediction of Prokaryotic Transmembrane β-barrel Proteins.

Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, 2020, Journal of molecular biology.

Bioinformatics Original Paper Predicting the Insurgence of Human Genetic Diseases Associated to Single Point Protein Mutations with Support Vector Machines and Evolutionary Information

Emidio Capriotti, Rita Casadio, Remo Calabrese, 2022 .

Guest Editor's Introduction to the Special Section on Computational Biology and Bioinformatics (WABI) - Part 2

Rita Casadio, 2007, IEEE ACM Trans. Comput. Biol. Bioinform..

Large-scale prediction and analysis of protein sub-mitochondrial localization with DeepMito

Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, 2020, BMC Bioinformatics.

Prediction of disulfide connectivity in proteins with machine-learning methods and correlated mutations

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2013, BMC Bioinformatics.

Improving the detection of transmembrane β-barrel chains with N-to-1 extreme learning machines

Piero Fariselli, Castrense Savojardo, Rita Casadio, 2011, Bioinform..

Refining Neural Network Predictions for Helical Transmembrane Proteins by Dynamic Programming

Burkhard Rost, Piero Fariselli, Rita Casadio, 1996, ISMB.

An expanded evaluation of protein function prediction methods shows an improvement in accuracy

Tapio Salakoski, Paolo Fontana, Silvio C. E. Tosatto, 2016, Genome Biology.

Tools and data services registry: a community effort to document bioinformatics resources

Silvio C. E. Tosatto, Anthony Bretaudeau, Burkhard Rost, 2015, Nucleic Acids Res..

MemLoci: predicting subcellular localization of membrane proteins in eukaryotes

Pier Luigi Martelli, Rita Casadio, Andrea Pierleoni, 2011, Bioinform..

I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure

Piero Fariselli, Emidio Capriotti, Rita Casadio, 2005, Nucleic Acids Res..

A new decoding algorithm for hidden Markov models improves the prediction of the topology of all-beta membrane proteins

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2005, BMC Bioinformatics.

Pseudodihedral Potential of Protein Residues and the Prediction of Folding

Piero Fariselli, Rita Casadio, R. Casadio, 1997, BCEC.

Overview of BITS2005, the Second Annual Meeting of the Italian Bioinformatics Society

Giorgio Valle, Graziano Pesole, Giancarlo Mauri, 2005, BMC Bioinformatics.

TPpred3 detects and discriminates mitochondrial and chloroplastic targeting peptides in eukaryotic proteins

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2015, Bioinform..

Improving the prediction of disulfide bonds in Eukaryotes with machine learning methods and protein subcellular localization

Piero Fariselli, Monther Alhamdoosh, Castrense Savojardo, 2011, Bioinform..

Noise and randomlike behavior in perceptrons: theory and application to protein structure prediction

Piero Fariselli, Rita Casadio, Mario Compiani, 1996, Defense + Commercial Sensing.

PhD-SNP, a web server for the prediction of human genetic diseases associated to single point protein mutation.

Emidio Capriotti, Rita Casadio, Remo Calabrese, 2006 .

Predicting protein thermostability changes from sequence upon multiple mutations

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2008, ISMB.

PredGPI: a GPI-anchor predictor

Pier Luigi Martelli, Rita Casadio, Andrea Pierleoni, 2008, BMC Bioinformatics.

TPpred2: improving the prediction of mitochondrial targeting peptide cleavage sites by exploiting sequence motifs

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2014, Bioinform..

Self-Organizing Neural Maps of the Coding Sequences of G-protein-coupled Receptors Reveal Local Domains Associated with Potentially Functional Determinants in the Proteins

Piero Fariselli, Rita Casadio, P. Arrigo, 1997, ISMB.

The bologna annotation resource: a non hierarchical method for the functional and structural annotation of protein sequences relying on a comparative large-scale genome analysis.

Piero Fariselli, Giacinto Donvito, Pier Luigi Martelli, 2009, Journal of proteome research.

eSLDB: eukaryotic subcellular localization database

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2006, Nucleic Acids Res..

A Graph Theoretic Approach to Protein Structure Selection

Piero Fariselli, Rita Casadio, Luciano Margara, 2007, WILF.

Performance of in silico tools for the evaluation of p16INK4a (CDKN2A) variants in CAGI

Yuedong Yang, Olivier Lichtarge, Giovanni Minervini, 2017, Human mutation.

Assessing the performance of in silico methods for predicting the pathogenicity of variants in the gene CHEK2, among Hispanic females with breast cancer

Olivier Lichtarge, Predrag Radivojac, Emidio Capriotti, 2019, Human mutation.

Blind prediction of deleterious amino acid variations with SNPs&GO

Piero Fariselli, Emidio Capriotti, Pier Luigi Martelli, 2017, Human mutation.

Neural networks to study invariant features of protein folding

Rita Casadio, P. Fariselli, Mario Compiani, 1999 .

Computer-based prediction of mitochondria-targeting peptides.

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2015, Methods in molecular biology.

A low-resolution 3D model of the tetrameric alcohol dehydrogenase from Sulfolobus solfataricus.

Pier Luigi Martelli, Rita Casadio, Mosè Rossi, 2002, Protein engineering.

Thermodynamics of binding of regulatory ligands to tissue transglutaminase

Rita Casadio, Gianluca Tasco, R. Casadio, 2010, Amino Acids.

SChloro: directing Viridiplantae proteins to six chloroplastic sub-compartments.

Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, 2016, Bioinformatics.

Prediction of disulfide‐bonded cysteines in proteomes with a hidden neural network

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2004, Proteomics.

The LIBI Grid Platform for Bioinformatics

Ernesto Picardi, Piero Fariselli, Italo Epicoco, 2008 .

Assessing computational predictions of the phenotypic effect of cystathionine‐beta‐synthase variants

Silvio C. E. Tosatto, Predrag Radivojac, Mauno Vihinen, 2019, Human mutation.

A predictor of transmembrane α-helix domains of proteins based on neural networks

Piero Fariselli, Rita Casadio, Mario Compiani, 2004, European Biophysics Journal.

New Escherichia coli outer membrane proteins identified through prediction and experimental verification

Rita Casadio, Samuel Wagner, Gunnar von Heijne, 2006, Protein science : a publication of the Protein Society.

Benchmarking predictions of allostery in liver pyruvate kinase in CAGI4

Olivier Lichtarge, Roland L Dunbrack, Qifang Xu, 2017, Human mutation.

Correlating disease‐related mutations to their effect on protein stability: A large‐scale analysis of the human proteome

Piero Fariselli, Rita Casadio, Marco Vassura, 2011, Human mutation.

Reconstruction of the protein structures from contact maps

Piero Fariselli, Rita Casadio, Luciano Margara, 2006 .

The evaluation of protein folding rate constant is improved by predicting the folding kinetic order with a SVM-based method

Emidio Capriotti, Rita Casadio, 2006 .

Robust determinants of thermostability highlighted by a codon frequency index capable of discriminating thermophilic from mesophilic genomes.

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2007, Journal of proteome research.

Working toward precision medicine: Predicting phenotypes from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges

Alexander A. Morgan, Yanay Ofran, Predrag Radivojac, 2017, Human mutation.

Using community events to increase quality and adoption of standards: the case of Bioschemas

Silvio C. E. Tosatto, Graziano Pesole, Rafael C. Jimenez, 2018 .

The implications of alternative splicing in the ENCODE protein complement

Hagen Blankenburg, Fidel Ramírez, Thomas Lengauer, 2007, Proceedings of the National Academy of Sciences.

On the effect of protein conformation diversity in discriminating among neutral and disease related single amino acid substitutions

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2012, BMC Genomics.

eDGAR: a database of Disease-Gene Associations with annotated Relationships among genes

Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, 2017, BMC Genomics.

A genome wide association study for backfat thickness in Italian Large White pigs highlights new regions affecting fat deposition including neuronal genes

Vincenzo Russo, Pier Luigi Martelli, Rita Casadio, 2012, BMC Genomics.

Substitution in the Murine Nectin1 Receptor of a Single Conserved Amino Acid at a Position Distal from the Herpes Simplex Virus gD Binding Site Confers High-Affinity Binding to gD

Rita Casadio, Marc Lopez, Carlo Bertucci, 2002, Journal of Virology.

Transglutaminases: nature's biological glues.

Rita Casadio, R. Casadio, C. Bergamini, 2002, The Biochemical journal.

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Jari Björne, Tapio Salakoski, Giorgio Valentini, 2019, Genome Biology.

AB INITIO STUDY OF THE MECHANISM OF THE BINDING OF TRIPLET O2 TO HEMOCYANIN

Piero Fariselli, Rita Casadio, Fernando Bernardi, 1996 .

Performance of computational methods for the evaluation of pericentriolar material 1 missense variants in CAGI‐5

Olivier Lichtarge, Emidio Capriotti, Kivilcim Ozturk, 2019, Human mutation.

NET-GE: a novel NETwork-based Gene Enrichment for detecting biological processes associated to Mendelian diseases

Piero Fariselli, Pier Luigi Martelli, Rita Casadio, 2015, BMC Genomics.

Predicting secondary structures of membrane proteins with neural networks

Piero Fariselli, Rita Casadio, Mario Compiani, 2004, European Biophysics Journal.