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@article{DBLP:journals/nar/CapriottiMPRGAF19,
  author       = {Emidio Capriotti and
                  Ludovica Montanucci and
                  Giuseppe Profiti and
                  Ivan Rossi and
                  Diana Giannuzzi and
                  Luca Aresu and
                  Piero Fariselli},
  title        = {Fido-SNP: the first webserver for scoring the impact of single nucleotide
                  variants in the dog genome},
  journal      = {Nucleic Acids Res.},
  volume       = {47},
  number       = {Webserver-Issue},
  pages        = {W136--W141},
  year         = {2019},
  url          = {https://doi.org/10.1093/nar/gkz420},
  doi          = {10.1093/NAR/GKZ420},
  timestamp    = {Sun, 02 Oct 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/nar/CapriottiMPRGAF19.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@incollection{DBLP:reference/bioinf/MartelliPC19,
  author       = {Pier Luigi Martelli and
                  Giuseppe Profiti and
                  Rita Casadio},
  editor       = {Shoba Ranganathan and
                  Michael Gribskov and
                  Kenta Nakai and
                  Christian Sch{\"{o}}nbach},
  title        = {Protein Functional Annotation},
  booktitle    = {Encyclopedia of Bioinformatics and Computational Biology - Volume
                  2},
  pages        = {8--14},
  publisher    = {Elsevier},
  year         = {2019},
  url          = {https://doi.org/10.1016/b978-0-12-809633-8.12364-7},
  doi          = {10.1016/B978-0-12-809633-8.12364-7},
  timestamp    = {Sun, 06 Oct 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/reference/bioinf/MartelliPC19.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@incollection{DBLP:reference/bioinf/MartelliSPC19,
  author       = {Pier Luigi Martelli and
                  Castrense Savojardo and
                  Giuseppe Profiti and
                  Rita Casadio},
  editor       = {Shoba Ranganathan and
                  Michael Gribskov and
                  Kenta Nakai and
                  Christian Sch{\"{o}}nbach},
  title        = {Transmembrane Domain Prediction},
  booktitle    = {Encyclopedia of Bioinformatics and Computational Biology - Volume
                  2},
  pages        = {46--52},
  publisher    = {Elsevier},
  year         = {2019},
  url          = {https://doi.org/10.1016/b978-0-12-809633-8.20269-0},
  doi          = {10.1016/B978-0-12-809633-8.20269-0},
  timestamp    = {Sun, 06 Oct 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/reference/bioinf/MartelliSPC19.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/nar/SavojardoMFPC18,
  author       = {Castrense Savojardo and
                  Pier Luigi Martelli and
                  Piero Fariselli and
                  Giuseppe Profiti and
                  Rita Casadio},
  title        = {{BUSCA:} an integrative web server to predict subcellular localization
                  of proteins},
  journal      = {Nucleic Acids Res.},
  volume       = {46},
  number       = {Webserver-Issue},
  pages        = {W459--W466},
  year         = {2018},
  url          = {https://doi.org/10.1093/nar/gky320},
  doi          = {10.1093/NAR/GKY320},
  timestamp    = {Mon, 05 Feb 2024 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/nar/SavojardoMFPC18.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/nar/ProfitiMC17,
  author       = {Giuseppe Profiti and
                  Pier Luigi Martelli and
                  Rita Casadio},
  title        = {The Bologna Annotation Resource {(BAR} 3.0): improving protein functional
                  annotation},
  journal      = {Nucleic Acids Res.},
  volume       = {45},
  number       = {Webserver-Issue},
  pages        = {W285--W290},
  year         = {2017},
  url          = {https://doi.org/10.1093/nar/gkx330},
  doi          = {10.1093/NAR/GKX330},
  timestamp    = {Sun, 17 May 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/nar/ProfitiMC17.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/nar/IsonRMKRCABBBBB16,
  author       = {Jon C. Ison and
                  Kristoffer Rapacki and
                  Herv{\'{e}} M{\'{e}}nager and
                  Mat{\'{u}}s Kalas and
                  Emil Rydza and
                  Piotr Chmura and
                  Christian Anthon and
                  Niall Beard and
                  Karel Berka and
                  Dan M. Bolser and
                  Tim Booth and
                  Anthony Bretaudeau and
                  Jan Brezovsky and
                  Rita Casadio and
                  Gianni Cesareni and
                  Frederik Coppens and
                  Michael Cornell and
                  Gianmauro Cuccuru and
                  Kristian Davidsen and
                  Gianluca Della Vedova and
                  Tunca Dogan and
                  Olivia Doppelt{-}Azeroual and
                  Laura Emery and
                  Elisabeth Gasteiger and
                  Thomas Gatter and
                  Tatyana Goldberg and
                  Marie Grosjean and
                  Bj{\"{o}}rn A. Gr{\"{u}}ning and
                  Manuela Helmer{-}Citterich and
                  Hans Ienasescu and
                  Vassilios Ioannidis and
                  Martin Closter Jespersen and
                  Rafael C. Jim{\'{e}}nez and
                  Nick S. Juty and
                  Peter Juvan and
                  Maximilian Koch and
                  Camille Laibe and
                  Jing{-}Woei Li and
                  Luana Licata and
                  Fabien Mareuil and
                  Ivan Micetic and
                  Rune M{\o}llegaard Friborg and
                  S{\'{e}}bastien Moretti and
                  Chris Morris and
                  Steffen M{\"{o}}ller and
                  Aleksandra Nenadic and
                  Hedi Peterson and
                  Giuseppe Profiti and
                  Peter M. Rice and
                  Paolo Romano and
                  Paola Roncaglia and
                  Rabie Saidi and
                  Andrea Schafferhans and
                  Veit Schw{\"{a}}mmle and
                  Callum Smith and
                  Maria Maddalena Sperotto and
                  Heinz Stockinger and
                  Radka Svobodov{\'{a}} Varekov{\'{a}} and
                  Silvio C. E. Tosatto and
                  Victor de la Torre and
                  Paolo Uva and
                  Allegra Via and
                  Guy Yachdav and
                  Federico Zambelli and
                  Gert Vriend and
                  Burkhard Rost and
                  Helen E. Parkinson and
                  Peter L{\o}ngreen and
                  S{\o}ren Brunak},
  title        = {Tools and data services registry: a community effort to document bioinformatics
                  resources},
  journal      = {Nucleic Acids Res.},
  volume       = {44},
  number       = {Database-Issue},
  pages        = {38--47},
  year         = {2016},
  url          = {https://doi.org/10.1093/nar/gkv1116},
  doi          = {10.1093/NAR/GKV1116},
  timestamp    = {Sun, 06 Oct 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/nar/IsonRMKRCABBBBB16.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@phdthesis{DBLP:phd/basesearch/Profiti15,
  author       = {Giuseppe Profiti},
  title        = {Graph algorithms for bioinformatics},
  school       = {University of Bologna, Italy},
  year         = {2015},
  url          = {http://amsdottorato.unibo.it/6914/},
  timestamp    = {Thu, 01 Jun 2017 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/phd/basesearch/Profiti15.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/bioinformatics/ProfitiFC15,
  author       = {Giuseppe Profiti and
                  Piero Fariselli and
                  Rita Casadio},
  title        = {AlignBucket: a tool to speed up 'all-against-all' protein sequence
                  alignments optimizing length constraints},
  journal      = {Bioinform.},
  volume       = {31},
  number       = {23},
  pages        = {3841--3843},
  year         = {2015},
  url          = {https://doi.org/10.1093/bioinformatics/btv451},
  doi          = {10.1093/BIOINFORMATICS/BTV451},
  timestamp    = {Mon, 02 Mar 2020 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/bioinformatics/ProfitiFC15.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/biodb/PiovesanPMFFC13,
  author       = {Damiano Piovesan and
                  Giuseppe Profiti and
                  Pier Luigi Martelli and
                  Piero Fariselli and
                  Luca Fontanesi and
                  Rita Casadio},
  title        = {{SUS-BAR:} a database of pig proteins with statistically validated
                  structural and functional annotation},
  journal      = {Database J. Biol. Databases Curation},
  volume       = {2013},
  year         = {2013},
  url          = {https://doi.org/10.1093/database/bat065},
  doi          = {10.1093/DATABASE/BAT065},
  timestamp    = {Thu, 13 Aug 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/biodb/PiovesanPMFFC13.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/bmcbi/PiovesanMFPZRC13,
  author       = {Damiano Piovesan and
                  Pier Luigi Martelli and
                  Piero Fariselli and
                  Giuseppe Profiti and
                  Andrea Zauli and
                  Ivan Rossi and
                  Rita Casadio},
  title        = {How to inherit statistically validated annotation within {BAR+} protein
                  clusters},
  journal      = {{BMC} Bioinform.},
  volume       = {14},
  number       = {{S-3}},
  pages        = {S4},
  year         = {2013},
  url          = {https://doi.org/10.1186/1471-2105-14-S3-S4},
  doi          = {10.1186/1471-2105-14-S3-S4},
  timestamp    = {Sun, 02 Oct 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bmcbi/PiovesanMFPZRC13.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/jetc/PiovesanPMFC13,
  author       = {Damiano Piovesan and
                  Giuseppe Profiti and
                  Pier Luigi Martelli and
                  Piero Fariselli and
                  Rita Casadio},
  title        = {Extended and Robust Protein Sequence Annotation over Conservative
                  Nonhierarchical Clusters: The Case Study of the {ABC} Transporters},
  journal      = {{ACM} J. Emerg. Technol. Comput. Syst.},
  volume       = {9},
  number       = {4},
  pages        = {27:1--27:8},
  year         = {2013},
  url          = {https://doi.org/10.1145/2504729},
  doi          = {10.1145/2504729},
  timestamp    = {Mon, 08 Jun 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jetc/PiovesanPMFC13.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/biostec/ProfitiPMFC13,
  author       = {Giuseppe Profiti and
                  Damiano Piovesan and
                  Pier Luigi Martelli and
                  Piero Fariselli and
                  Rita Casadio},
  editor       = {Pedro Fernandes and
                  Jordi Sol{\'{e}}{-}Casals and
                  Ana L. N. Fred and
                  Hugo Gamboa},
  title        = {Community Detection within Clusters Helps Large Scale Protein Annotation
                  - Preliminary Results of Modularity Maximization for the {BAR+} Database},
  booktitle    = {{BIOINFORMATICS} 2013 - Proceedings of the International Conference
                  on Bioinformatics Models, Methods and Algorithms, Barcelona, Spain,
                  11 - 14 February, 2013},
  pages        = {328--332},
  publisher    = {SciTePress},
  year         = {2013},
  timestamp    = {Tue, 01 Oct 2013 18:44:42 +0200},
  biburl       = {https://dblp.org/rec/conf/biostec/ProfitiPMFC13.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/iwbbio/ProfitiPMFC13,
  author       = {Giuseppe Profiti and
                  Damiano Piovesan and
                  Pier Luigi Martelli and
                  Piero Fariselli and
                  Rita Casadio},
  editor       = {Ignacio Rojas and
                  Francisco M. Ortu{\~{n}}o Guzman},
  title        = {Protein Sequence Annotation by means of Community Detection},
  booktitle    = {International Work-Conference on Bioinformatics and Biomedical Engineering,
                  {IWBBIO} 2013, Granada, Spain, March 18-20, 2013. Proceedings},
  pages        = {753--755},
  publisher    = {Copicentro Editorial},
  year         = {2013},
  url          = {http://iwbbio.ugr.es/papers/iwbbio\_119.pdf},
  timestamp    = {Thu, 12 Mar 2020 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/conf/iwbbio/ProfitiPMFC13.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@article{DBLP:journals/bmcbi/PiovesanPMC12,
  author       = {Damiano Piovesan and
                  Giuseppe Profiti and
                  Pier Luigi Martelli and
                  Rita Casadio},
  title        = {The human "magnesome": detecting magnesium binding sites on human
                  proteins},
  journal      = {{BMC} Bioinform.},
  volume       = {13},
  number       = {{S-14}},
  pages        = {S10},
  year         = {2012},
  url          = {https://doi.org/10.1186/1471-2105-13-S14-S10},
  doi          = {10.1186/1471-2105-13-S14-S10},
  timestamp    = {Mon, 05 Feb 2024 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/bmcbi/PiovesanPMC12.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

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