Castrense Savojardo

30 papers Journal 25Unranked 3

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	DDGemb: predicting protein stability change upon single- and multi-point variations with embeddings and deep learning. Bioinform. Castrense Savojardo, Matteo Manfredi, Pier Luigi Martelli, Rita Casadio
2025	J	`jnl`	Embedding-Based Alignments Capture Structural and Sequence Domains of Distantly Related Multifunctional Human Proteins. Comput. Gabriele Vazzana, Matteo Manfredi, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio
2023	J	`jnl`	CoCoNat: a novel method based on deep learning for coiled-coil prediction. Bioinform. Giovanni Madeo, Castrense Savojardo, Matteo Manfredi, Pier Luigi Martelli, Rita Casadio
2022	J	`jnl`	E-SNPs&GO: embedding of protein sequence and function improves the annotation of human pathogenic variants. Bioinform. Matteo Manfredi, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio
2021	J	`jnl`	BENZ WS: the Bologna ENZyme Web Server for four-level EC number annotation. Nucleic Acids Res. Davide Baldazzi, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio
2021	J	`jnl`	On the critical review of five machine learning-based algorithms for predicting protein stability changes upon mutation. Briefings Bioinform. Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, Piero Fariselli
2020	J	`jnl`	DeepMito: accurate prediction of protein sub-mitochondrial localization using convolutional neural networks. Bioinform. Castrense Savojardo, Niccolò Bruciaferri, Giacomo Tartari, Pier Luigi Martelli, Rita Casadio
2020	J	`jnl`	Large-scale prediction and analysis of protein sub-mitochondrial localization with DeepMito. BMC Bioinform. Castrense Savojardo, Pier Luigi Martelli, Giacomo Tartari, Rita Casadio
2019	J	`jnl`	On the biases in predictions of protein stability changes upon variations: the INPS test case. Bioinform. Ludovica Montanucci, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, Piero Fariselli
2019	—	`ch.`	Transmembrane Domain Prediction. Encyclopedia of Bioinformatics and Computational Biology (2) Pier Luigi Martelli, Castrense Savojardo, Giuseppe Profiti, Rita Casadio
2018	J	`jnl`	BUSCA: an integrative web server to predict subcellular localization of proteins. Nucleic Acids Res. Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Giuseppe Profiti, Rita Casadio
2018	J	`jnl`	DeepSig: deep learning improves signal peptide detection in proteins. Bioinform. Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Rita Casadio
2017	J	`jnl`	ISPRED4: interaction sites PREDiction in protein structures with a refining grammar model. Bioinform. Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Rita Casadio
2017	J	`jnl`	SChloro: directing Viridiplantae proteins to six chloroplastic sub-compartments. Bioinform. Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Rita Casadio
2016	J	`jnl`	INPS-MD: a web server to predict stability of protein variants from sequence and structure. Bioinform. Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Rita Casadio
2015	J	`jnl`	INPS: predicting the impact of non-synonymous variations on protein stability from sequence. Bioinform. Piero Fariselli, Pier Luigi Martelli, Castrense Savojardo, Rita Casadio
2015	J	`jnl`	TPpred3 detects and discriminates mitochondrial and chloroplastic targeting peptides in eukaryotic proteins. Bioinform. Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Rita Casadio
2014	J	`jnl`	TPpred2: improving the prediction of mitochondrial targeting peptide cleavage sites by exploiting sequence motifs. Bioinform. Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Rita Casadio
2013	J	`jnl`	BCov: a method for predicting β-sheet topology using sparse inverse covariance estimation and integer programming. Bioinform. Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Rita Casadio
2013	J	`jnl`	BETAWARE: a machine-learning tool to detect and predict transmembrane beta-barrel proteins in prokaryotes. Bioinform. Castrense Savojardo, Piero Fariselli, Rita Casadio
2013	—	`—`	Machine-learning methods for structure prediction of β-barrel membrane proteins. Castrense Savojardo
2013	J	`jnl`	Prediction of disulfide connectivity in proteins with machine-learning methods and correlated mutations. BMC Bioinform. Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Rita Casadio
2013	J	`jnl`	The prediction of organelle-targeting peptides in eukaryotic proteins with Grammatical-Restrained Hidden Conditional Random Fields. Bioinform. Valentina Indio, Pier Luigi Martelli, Castrense Savojardo, Piero Fariselli, Rita Casadio
2011	—	`conf`	Disulfide Connectivity Prediction with Extreme Learning Machines. BIOINFORMATICS Monther Alhamdoosh, Castrense Savojardo, Piero Fariselli, Rita Casadio
2011	J	`jnl`	Improving the detection of transmembrane β-barrel chains with N-to-1 extreme learning machines. Bioinform. Castrense Savojardo, Piero Fariselli, Rita Casadio
2011	J	`jnl`	Improving the prediction of disulfide bonds in Eukaryotes with machine learning methods and protein subcellular localization. Bioinform. Castrense Savojardo, Piero Fariselli, Monther Alhamdoosh, Pier Luigi Martelli, Andrea Pierleoni, Rita Casadio
2011	—	`conf`	Machine-Learning Methods to Predict Protein Interaction Sites in Folded Proteins. CIBB Castrense Savojardo, Piero Fariselli, Damiano Piovesan, Pier Luigi Martelli, Rita Casadio
2011	J	`jnl`	MemPype: a pipeline for the annotation of eukaryotic membrane proteins. Nucleic Acids Res. Andrea Pierleoni, Valentina Indio, Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Rita Casadio
2010	—	`conf`	Prediction of the Bonding State of Cysteine Residues in Proteins with Machine-Learning Methods. CIBB Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Priyank Shukla, Rita Casadio
2009	J	`jnl`	Grammatical-Restrained Hidden Conditional Random Fields for Bioinformatics applications. Algorithms Mol. Biol. Piero Fariselli, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio