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- Rita Casadio
University of Bologna, Italy
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Publication search results
found 106 matches
- 2023
- Giovanni Madeo, Castrense Savojardo, Matteo Manfredi, Pier Luigi Martelli, Rita Casadio:
CoCoNat: a novel method based on deep learning for coiled-coil prediction. Bioinform. 39(8) (2023) - 2022
- Matteo Manfredi, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio:
E-SNPs&GO: embedding of protein sequence and function improves the annotation of human pathogenic variants. Bioinform. 38(23): 5168-5174 (2022) - 2021
- Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, Piero Fariselli:
On the critical review of five machine learning-based algorithms for predicting protein stability changes upon mutation. Briefings Bioinform. 22(1): 601-603 (2021) - Davide Baldazzi, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio:
BENZ WS: the Bologna ENZyme Web Server for four-level EC number annotation. Nucleic Acids Res. 49(Webserver-Issue): 60-66 (2021) - 2020
- Castrense Savojardo, Niccolò Bruciaferri, Giacomo Tartari, Pier Luigi Martelli, Rita Casadio:
DeepMito: accurate prediction of protein sub-mitochondrial localization using convolutional neural networks. Bioinform. 36(1): 56-64 (2020) - Castrense Savojardo, Pier Luigi Martelli, Giacomo Tartari, Rita Casadio:
Large-scale prediction and analysis of protein sub-mitochondrial localization with DeepMito. BMC Bioinform. 21-S(8): 266 (2020) - 2019
- Ludovica Montanucci, Castrense Savojardo, Pier Luigi Martelli, Rita Casadio, Piero Fariselli:
On the biases in predictions of protein stability changes upon variations: the INPS test case. Bioinform. 35(14): 2525-2527 (2019) - Pier Luigi Martelli, Giuseppe Profiti, Rita Casadio:
Protein Functional Annotation. Encyclopedia of Bioinformatics and Computational Biology (2) 2019: 8-14 - Pier Luigi Martelli, Castrense Savojardo, Giuseppe Profiti, Rita Casadio:
Transmembrane Domain Prediction. Encyclopedia of Bioinformatics and Computational Biology (2) 2019: 46-52 - 2018
- Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
DeepSig: deep learning improves signal peptide detection in proteins. Bioinform. 34(10): 1690-1696 (2018) - Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Giuseppe Profiti, Rita Casadio:
BUSCA: an integrative web server to predict subcellular localization of proteins. Nucleic Acids Res. 46(Webserver-Issue): W459-W466 (2018) - 2017
- Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Rita Casadio:
ISPRED4: interaction sites PREDiction in protein structures with a refining grammar model. Bioinform. 33(11): 1656-1663 (2017) - Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
SChloro: directing Viridiplantae proteins to six chloroplastic sub-compartments. Bioinform. 33(3): 347-353 (2017) - Giuseppe Profiti, Pier Luigi Martelli, Rita Casadio:
The Bologna Annotation Resource (BAR 3.0): improving protein functional annotation. Nucleic Acids Res. 45(Webserver-Issue): W285-W290 (2017) - 2016
- Samuele Bovo, Pietro Di Lena, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
NET-GE: a web-server for NETwork-based human gene enrichment. Bioinform. 32(22): 3489-3491 (2016) - Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Rita Casadio:
INPS-MD: a web server to predict stability of protein variants from sequence and structure. Bioinform. 32(16): 2542-2544 (2016) - Jon C. Ison, Kristoffer Rapacki, Hervé Ménager, Matús Kalas, Emil Rydza, Piotr Chmura, Christian Anthon, Niall Beard, Karel Berka, Dan M. Bolser, Tim Booth, Anthony Bretaudeau, Jan Brezovsky, Rita Casadio, Gianni Cesareni, Frederik Coppens, Michael Cornell, Gianmauro Cuccuru, Kristian Davidsen, Gianluca Della Vedova, Tunca Dogan, Olivia Doppelt-Azeroual, Laura Emery, Elisabeth Gasteiger, Thomas Gatter, Tatyana Goldberg, Marie Grosjean, Björn A. Grüning, Manuela Helmer-Citterich, Hans Ienasescu, Vassilios Ioannidis, Martin Closter Jespersen, Rafael C. Jiménez, Nick S. Juty, Peter Juvan, Maximilian Koch, Camille Laibe, Jing-Woei Li, Luana Licata, Fabien Mareuil, Ivan Micetic, Rune Møllegaard Friborg, Sébastien Moretti, Chris Morris, Steffen Möller, Aleksandra Nenadic, Hedi Peterson, Giuseppe Profiti, Peter M. Rice, Paolo Romano, Paola Roncaglia, Rabie Saidi, Andrea Schafferhans, Veit Schwämmle, Callum Smith, Maria Maddalena Sperotto, Heinz Stockinger, Radka Svobodová Vareková, Silvio C. E. Tosatto, Victor de la Torre, Paolo Uva, Allegra Via, Guy Yachdav, Federico Zambelli, Gert Vriend, Burkhard Rost, Helen E. Parkinson, Peter Løngreen, Søren Brunak:
Tools and data services registry: a community effort to document bioinformatics resources. Nucleic Acids Res. 44(Database-Issue): 38-47 (2016) - 2015
- Piero Fariselli, Pier Luigi Martelli, Castrense Savojardo, Rita Casadio:
INPS: predicting the impact of non-synonymous variations on protein stability from sequence. Bioinform. 31(17): 2816-2821 (2015) - Giuseppe Profiti, Piero Fariselli, Rita Casadio:
AlignBucket: a tool to speed up 'all-against-all' protein sequence alignments optimizing length constraints. Bioinform. 31(23): 3841-3843 (2015) - Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
TPpred3 detects and discriminates mitochondrial and chloroplastic targeting peptides in eukaryotic proteins. Bioinform. 31(20): 3269-3275 (2015) - 2014
- Castrense Savojardo, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
TPpred2: improving the prediction of mitochondrial targeting peptide cleavage sites by exploiting sequence motifs. Bioinform. 30(20): 2973-2974 (2014) - 2013
- Damiano Piovesan, Giuseppe Profiti, Pier Luigi Martelli, Piero Fariselli, Luca Fontanesi, Rita Casadio:
SUS-BAR: a database of pig proteins with statistically validated structural and functional annotation. Database J. Biol. Databases Curation 2013 (2013) - Valentina Indio, Pier Luigi Martelli, Castrense Savojardo, Piero Fariselli, Rita Casadio:
The prediction of organelle-targeting peptides in eukaryotic proteins with Grammatical-Restrained Hidden Conditional Random Fields. Bioinform. 29(8): 981-988 (2013) - Castrense Savojardo, Piero Fariselli, Rita Casadio:
BETAWARE: a machine-learning tool to detect and predict transmembrane beta-barrel proteins in prokaryotes. Bioinform. 29(4): 504-505 (2013) - Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Rita Casadio:
BCov: a method for predicting β-sheet topology using sparse inverse covariance estimation and integer programming. Bioinform. 29(24): 3151-3157 (2013) - Pietro Di Lena, Gang Wu, Pier Luigi Martelli, Rita Casadio, Christine Nardini:
MIMO: an efficient tool for molecular interaction maps overlap. BMC Bioinform. 14: 159 (2013) - Damiano Piovesan, Pier Luigi Martelli, Piero Fariselli, Giuseppe Profiti, Andrea Zauli, Ivan Rossi, Rita Casadio:
How to inherit statistically validated annotation within BAR+ protein clusters. BMC Bioinform. 14(S-3): S4 (2013) - Castrense Savojardo, Piero Fariselli, Pier Luigi Martelli, Rita Casadio:
Prediction of disulfide connectivity in proteins with machine-learning methods and correlated mutations. BMC Bioinform. 14(S-1): S10 (2013) - Damiano Piovesan, Giuseppe Profiti, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
Extended and Robust Protein Sequence Annotation over Conservative Nonhierarchical Clusters: The Case Study of the ABC Transporters. ACM J. Emerg. Technol. Comput. Syst. 9(4): 27:1-27:8 (2013) - Giuseppe Profiti, Damiano Piovesan, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
Community Detection within Clusters Helps Large Scale Protein Annotation - Preliminary Results of Modularity Maximization for the BAR+ Database. BIOINFORMATICS 2013: 328-332
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