BibTeX records: Gianluca Della Vedova

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@article{DBLP:journals/algorithms/CiccolellaVFG23,
  author       = {Simone Ciccolella and
                  Gianluca Della Vedova and
                  Vladimir Filipovic and
                  Mauricio Soto Gomez},
  title        = {Three Metaheuristic Approaches for Tumor Phylogeny Inference: An Experimental
                  Comparison},
  journal      = {Algorithms},
  volume       = {16},
  number       = {7},
  pages        = {333},
  year         = {2023},
  url          = {https://doi.org/10.3390/a16070333},
  doi          = {10.3390/A16070333},
  timestamp    = {Fri, 18 Aug 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/algorithms/CiccolellaVFG23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/ChourasiaACVP23,
  author       = {Prakash Chourasia and
                  Sarwan Ali and
                  Simone Ciccolella and
                  Gianluca Della Vedova and
                  Murray Patterson},
  title        = {Reads2Vec: Efficient Embedding of Raw High-Throughput Sequencing Reads
                  Data},
  journal      = {J. Comput. Biol.},
  volume       = {30},
  number       = {4},
  pages        = {469--491},
  year         = {2023},
  url          = {https://doi.org/10.1089/cmb.2022.0424},
  doi          = {10.1089/CMB.2022.0424},
  timestamp    = {Fri, 02 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jcb/ChourasiaACVP23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iwbbio/BonizzoniVPRS23,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Raffaella Rizzi and
                  Mattia Sgr{\`{o}}},
  editor       = {Ignacio Rojas and
                  Olga Valenzuela and
                  Fernando Rojas Ruiz and
                  Luis Javier Herrera and
                  Francisco M. Ortu{\~{n}}o},
  title        = {Multiallelic Maximal Perfect Haplotype Blocks with Wildcards via {PBWT}},
  booktitle    = {Bioinformatics and Biomedical Engineering - 10th International Work-Conference,
                  {IWBBIO} 2023, Meloneras, Gran Canaria, Spain, July 12-14, 2023 Proceedings,
                  Part {I}},
  series       = {Lecture Notes in Computer Science},
  volume       = {13919},
  pages        = {62--76},
  publisher    = {Springer},
  year         = {2023},
  url          = {https://doi.org/10.1007/978-3-031-34953-9\_5},
  doi          = {10.1007/978-3-031-34953-9\_5},
  timestamp    = {Tue, 26 Dec 2023 17:13:20 +0100},
  biburl       = {https://dblp.org/rec/conf/iwbbio/BonizzoniVPRS23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@proceedings{DBLP:conf/cie/2023,
  editor       = {Gianluca Della Vedova and
                  Besik Dundua and
                  Steffen Lempp and
                  Florin Manea},
  title        = {Unity of Logic and Computation - 19th Conference on Computability
                  in Europe, CiE 2023, Batumi, Georgia, July 24-28, 2023, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {13967},
  publisher    = {Springer},
  year         = {2023},
  url          = {https://doi.org/10.1007/978-3-031-36978-0},
  doi          = {10.1007/978-3-031-36978-0},
  isbn         = {978-3-031-36977-3},
  timestamp    = {Wed, 26 Jul 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/cie/2023.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nc/BaaijensBBVPRS22,
  author       = {Jasmijn A. Baaijens and
                  Paola Bonizzoni and
                  Christina Boucher and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Raffaella Rizzi and
                  Jouni Sir{\'{e}}n},
  title        = {Computational graph pangenomics: a tutorial on data structures and
                  their applications},
  journal      = {Nat. Comput.},
  volume       = {21},
  number       = {1},
  pages        = {81--108},
  year         = {2022},
  url          = {https://doi.org/10.1007/s11047-022-09882-6},
  doi          = {10.1007/S11047-022-09882-6},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/nc/BaaijensBBVPRS22.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2211-08267,
  author       = {Prakash Chourasia and
                  Sarwan Ali and
                  Simone Ciccolella and
                  Gianluca Della Vedova and
                  Murray Patterson},
  title        = {Reads2Vec: Efficient Embedding of Raw High-Throughput Sequencing Reads
                  Data},
  journal      = {CoRR},
  volume       = {abs/2211.08267},
  year         = {2022},
  url          = {https://doi.org/10.48550/arXiv.2211.08267},
  doi          = {10.48550/ARXIV.2211.08267},
  eprinttype    = {arXiv},
  eprint       = {2211.08267},
  timestamp    = {Thu, 24 Nov 2022 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/corr/abs-2211-08267.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/CiccolellaBDBPV21,
  author       = {Simone Ciccolella and
                  Giulia Bernardini and
                  Luca Denti and
                  Paola Bonizzoni and
                  Marco Previtali and
                  Gianluca Della Vedova},
  title        = {Triplet-based similarity score for fully multilabeled trees with poly-occurring
                  labels},
  journal      = {Bioinform.},
  volume       = {37},
  number       = {2},
  pages        = {178--184},
  year         = {2021},
  url          = {https://doi.org/10.1093/bioinformatics/btaa676},
  doi          = {10.1093/BIOINFORMATICS/BTAA676},
  timestamp    = {Thu, 14 Oct 2021 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bioinformatics/CiccolellaBDBPV21.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/CiccolellaRGPSB21,
  author       = {Simone Ciccolella and
                  Camir Ricketts and
                  Mauricio Soto Gomez and
                  Murray Patterson and
                  Dana Silverbush and
                  Paola Bonizzoni and
                  Iman Hajirasouliha and
                  Gianluca Della Vedova},
  title        = {Inferring cancer progression from Single-Cell Sequencing while allowing
                  mutation losses},
  journal      = {Bioinform.},
  volume       = {37},
  number       = {3},
  pages        = {326--333},
  year         = {2021},
  url          = {https://doi.org/10.1093/bioinformatics/btaa722},
  doi          = {10.1093/BIOINFORMATICS/BTAA722},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bioinformatics/CiccolellaRGPSB21.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/DentiPPCVRB21,
  author       = {Luca Denti and
                  Yuri Pirola and
                  Marco Previtali and
                  Tamara Ceccato and
                  Gianluca Della Vedova and
                  Raffaella Rizzi and
                  Paola Bonizzoni},
  title        = {Shark: fishing relevant reads in an RNA-Seq sample},
  journal      = {Bioinform.},
  volume       = {37},
  number       = {4},
  pages        = {464--472},
  year         = {2021},
  url          = {https://doi.org/10.1093/bioinformatics/btaa779},
  doi          = {10.1093/BIOINFORMATICS/BTAA779},
  timestamp    = {Tue, 12 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bioinformatics/DentiPPCVRB21.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/CiccolellaDBVPP21a,
  author       = {Simone Ciccolella and
                  Luca Denti and
                  Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali},
  title        = {{MALVIRUS:} an integrated application for viral variant analysis},
  journal      = {{BMC} Bioinform.},
  volume       = {22-S},
  number       = {15},
  pages        = {625},
  year         = {2021},
  url          = {https://doi.org/10.1186/s12859-022-04668-0},
  doi          = {10.1186/S12859-022-04668-0},
  timestamp    = {Sat, 28 Oct 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bmcbi/CiccolellaDBVPP21a.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/AliCLVP21,
  author       = {Sarwan Ali and
                  Simone Ciccolella and
                  Lorenzo Lucarella and
                  Gianluca Della Vedova and
                  Murray Patterson},
  title        = {Simpler and Faster Development of Tumor Phylogeny Pipelines},
  journal      = {J. Comput. Biol.},
  volume       = {28},
  number       = {11},
  pages        = {1142--1155},
  year         = {2021},
  url          = {https://doi.org/10.1089/cmb.2021.0271},
  doi          = {10.1089/CMB.2021.0271},
  timestamp    = {Sun, 02 Oct 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jcb/AliCLVP21.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcs/BonizzoniVPPR21,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  title        = {Computing the multi-string {BWT} and {LCP} array in external memory},
  journal      = {Theor. Comput. Sci.},
  volume       = {862},
  pages        = {42--58},
  year         = {2021},
  url          = {https://doi.org/10.1016/j.tcs.2020.11.041},
  doi          = {10.1016/J.TCS.2020.11.041},
  timestamp    = {Tue, 23 Mar 2021 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/tcs/BonizzoniVPPR21.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/titb/CiccolellaPBV21,
  author       = {Simone Ciccolella and
                  Murray Patterson and
                  Paola Bonizzoni and
                  Gianluca Della Vedova},
  title        = {Effective Clustering for Single Cell Sequencing Cancer Data},
  journal      = {{IEEE} J. Biomed. Health Informatics},
  volume       = {25},
  number       = {11},
  pages        = {4068--4078},
  year         = {2021},
  url          = {https://doi.org/10.1109/JBHI.2021.3081380},
  doi          = {10.1109/JBHI.2021.3081380},
  timestamp    = {Sat, 09 Apr 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/titb/CiccolellaPBV21.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/ChourasiaACVP21,
  author       = {Prakash Chourasia and
                  Sarwan Ali and
                  Simone Ciccolella and
                  Gianluca Della Vedova and
                  Murray Patterson},
  editor       = {Mukul S. Bansal and
                  Ion I. Mandoiu and
                  Marmar Moussa and
                  Murray Patterson and
                  Sanguthevar Rajasekaran and
                  Pavel Skums and
                  Alexander Zelikovsky},
  title        = {Clustering SARS-CoV-2 Variants from Raw High-Throughput Sequencing
                  Reads Data},
  booktitle    = {Computational Advances in Bio and Medical Sciences: 11th International
                  Conference, {ICCABS} 2021, Virtual Event, December 16-18, 2021, Revised
                  Selected Papers},
  series       = {Lecture Notes in Computer Science},
  volume       = {13254},
  pages        = {133--148},
  publisher    = {Springer International Publishing},
  year         = {2021},
  url          = {https://doi.org/10.1007/978-3-031-17531-2\_11},
  doi          = {10.1007/978-3-031-17531-2\_11},
  timestamp    = {Sat, 13 Jan 2024 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/conf/iccabs/ChourasiaACVP21.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/CiccolellaGPVHB20,
  author       = {Simone Ciccolella and
                  Mauricio Soto Gomez and
                  Murray D. Patterson and
                  Gianluca Della Vedova and
                  Iman Hajirasouliha and
                  Paola Bonizzoni},
  title        = {gpps: an ILP-based approach for inferring cancer progression with
                  mutation losses from single cell data},
  journal      = {{BMC} Bioinform.},
  volume       = {21-S},
  number       = {1},
  pages        = {413},
  year         = {2020},
  url          = {https://doi.org/10.1186/s12859-020-03736-7},
  doi          = {10.1186/S12859-020-03736-7},
  timestamp    = {Sun, 02 Oct 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bmcbi/CiccolellaGPVHB20.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@proceedings{DBLP:conf/cie/2020,
  editor       = {Marcella Anselmo and
                  Gianluca Della Vedova and
                  Florin Manea and
                  Arno Pauly},
  title        = {Beyond the Horizon of Computability - 16th Conference on Computability
                  in Europe, CiE 2020, Fisciano, Italy, June 29 - July 3, 2020, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {12098},
  publisher    = {Springer},
  year         = {2020},
  url          = {https://doi.org/10.1007/978-3-030-51466-2},
  doi          = {10.1007/978-3-030-51466-2},
  isbn         = {978-3-030-51465-5},
  timestamp    = {Wed, 24 Jun 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/cie/2020.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/BonizzoniVPPR19,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  title        = {Multithread Multistring Burrows-Wheeler Transform and Longest Common
                  Prefix Array},
  journal      = {J. Comput. Biol.},
  volume       = {26},
  number       = {9},
  pages        = {948--961},
  year         = {2019},
  url          = {https://doi.org/10.1089/cmb.2018.0230},
  doi          = {10.1089/CMB.2018.0230},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jcb/BonizzoniVPPR19.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/quanbio/RizziBPPPVB19,
  author       = {Raffaella Rizzi and
                  Stefano Beretta and
                  Murray Patterson and
                  Yuri Pirola and
                  Marco Previtali and
                  Gianluca Della Vedova and
                  Paola Bonizzoni},
  title        = {Overlap graphs and de Bruijn graphs: data structures for de novo genome
                  assembly in the big data era},
  journal      = {Quant. Biol.},
  volume       = {7},
  number       = {4},
  pages        = {278--292},
  year         = {2019},
  url          = {https://doi.org/10.1007/s40484-019-0181-x},
  doi          = {10.1007/S40484-019-0181-X},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/quanbio/RizziBPPPVB19.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/BonizzoniCVS19,
  author       = {Paola Bonizzoni and
                  Simone Ciccolella and
                  Gianluca Della Vedova and
                  Mauricio Soto Gomez},
  title        = {Does Relaxing the Infinite Sites Assumption Give Better Tumor Phylogenies?
                  An ILP-Based Comparative Approach},
  journal      = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
  volume       = {16},
  number       = {5},
  pages        = {1410--1423},
  year         = {2019},
  url          = {https://doi.org/10.1109/TCBB.2018.2865729},
  doi          = {10.1109/TCBB.2018.2865729},
  timestamp    = {Mon, 03 Apr 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/tcbb/BonizzoniCVS19.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/CiccolellaPBV19,
  author       = {Simone Ciccolella and
                  Murray D. Patterson and
                  Paola Bonizzoni and
                  Gianluca Della Vedova},
  editor       = {Xinghua Mindy Shi and
                  Michael Buck and
                  Jian Ma and
                  Pierangelo Veltri},
  title        = {Effective Clustering for Single Cell Sequencing Cancer Data},
  booktitle    = {Proceedings of the 10th {ACM} International Conference on Bioinformatics,
                  Computational Biology and Health Informatics, {BCB} 2019, Niagara
                  Falls, NY, USA, September 7-10, 2019},
  pages        = {437--446},
  publisher    = {{ACM}},
  year         = {2019},
  url          = {https://doi.org/10.1145/3307339.3342149},
  doi          = {10.1145/3307339.3342149},
  timestamp    = {Sun, 02 Oct 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/bcb/CiccolellaPBV19.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cpm/0001BVP19,
  author       = {Giulia Bernardini and
                  Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Murray Patterson},
  editor       = {Nadia Pisanti and
                  Solon P. Pissis},
  title        = {A Rearrangement Distance for Fully-Labelled Trees},
  booktitle    = {30th Annual Symposium on Combinatorial Pattern Matching, {CPM} 2019,
                  June 18-20, 2019, Pisa, Italy},
  series       = {LIPIcs},
  volume       = {128},
  pages        = {28:1--28:15},
  publisher    = {Schloss Dagstuhl - Leibniz-Zentrum f{\"{u}}r Informatik},
  year         = {2019},
  url          = {https://doi.org/10.4230/LIPIcs.CPM.2019.28},
  doi          = {10.4230/LIPICS.CPM.2019.28},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/cpm/0001BVP19.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1904-01321,
  author       = {Giulia Bernardini and
                  Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Murray Patterson},
  title        = {A rearrangement distance for fully-labelled trees},
  journal      = {CoRR},
  volume       = {abs/1904.01321},
  year         = {2019},
  url          = {http://arxiv.org/abs/1904.01321},
  eprinttype    = {arXiv},
  eprint       = {1904.01321},
  timestamp    = {Thu, 02 May 2019 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-1904-01321.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/BerettaPZVB18,
  author       = {Stefano Beretta and
                  Murray Patterson and
                  Simone Zaccaria and
                  Gianluca Della Vedova and
                  Paola Bonizzoni},
  title        = {HapCHAT: adaptive haplotype assembly for efficiently leveraging high
                  coverage in long reads},
  journal      = {{BMC} Bioinform.},
  volume       = {19},
  number       = {1},
  pages        = {252:1--252:19},
  year         = {2018},
  url          = {https://doi.org/10.1186/s12859-018-2253-8},
  doi          = {10.1186/S12859-018-2253-8},
  timestamp    = {Sat, 09 Apr 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bmcbi/BerettaPZVB18.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/DentiRBVPB18,
  author       = {Luca Denti and
                  Raffaella Rizzi and
                  Stefano Beretta and
                  Gianluca Della Vedova and
                  Marco Previtali and
                  Paola Bonizzoni},
  title        = {{ASGAL:} aligning RNA-Seq data to a splicing graph to detect novel
                  alternative splicing events},
  journal      = {{BMC} Bioinform.},
  volume       = {19},
  number       = {1},
  pages        = {444:1--444:21},
  year         = {2018},
  url          = {https://doi.org/10.1186/s12859-018-2436-3},
  doi          = {10.1186/S12859-018-2436-3},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bmcbi/DentiRBVPB18.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cie/BonizzoniVNPPR18,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Serena Nicosia and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  editor       = {Florin Manea and
                  Russell G. Miller and
                  Dirk Nowotka},
  title        = {Divide and Conquer Computation of the Multi-string {BWT} and {LCP}
                  Array},
  booktitle    = {Sailing Routes in the World of Computation - 14th Conference on Computability
                  in Europe, CiE 2018, Kiel, Germany, July 30 - August 3, 2018, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {10936},
  pages        = {107--117},
  publisher    = {Springer},
  year         = {2018},
  url          = {https://doi.org/10.1007/978-3-319-94418-0\_11},
  doi          = {10.1007/978-3-319-94418-0\_11},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/cie/BonizzoniVNPPR18.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/CiccolellaGPVHB18,
  author       = {Simone Ciccolella and
                  Mauricio Soto Gomez and
                  Murray Patterson and
                  Gianluca Della Vedova and
                  Iman Hajirasouliha and
                  Paola Bonizzoni},
  title        = {gpps: an ILP-based approach for inferring cancer progression with
                  mutation losses from single cell data},
  booktitle    = {8th {IEEE} International Conference on Computational Advances in Bio
                  and Medical Sciences, {ICCABS} 2018, Las Vegas, NV, USA, October 18-20,
                  2018},
  pages        = {1},
  publisher    = {{IEEE} Computer Society},
  year         = {2018},
  url          = {https://doi.org/10.1109/ICCABS.2018.8542058},
  doi          = {10.1109/ICCABS.2018.8542058},
  timestamp    = {Thu, 23 Mar 2023 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/conf/iccabs/CiccolellaGPVHB18.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/algorithmica/BonizzoniVPPR17,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  title        = {An External-Memory Algorithm for String Graph Construction},
  journal      = {Algorithmica},
  volume       = {78},
  number       = {2},
  pages        = {394--424},
  year         = {2017},
  url          = {https://doi.org/10.1007/s00453-016-0165-4},
  doi          = {10.1007/S00453-016-0165-4},
  timestamp    = {Fri, 30 Nov 2018 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/algorithmica/BonizzoniVPPR17.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/fuin/BonizzoniCVRT17,
  author       = {Paola Bonizzoni and
                  Anna Paola Carrieri and
                  Gianluca Della Vedova and
                  Raffaella Rizzi and
                  Gabriella Trucco},
  title        = {Species-Driven Persistent Phylogeny},
  journal      = {Fundam. Informaticae},
  volume       = {154},
  number       = {1-4},
  pages        = {47--63},
  year         = {2017},
  url          = {https://doi.org/10.3233/FI-2017-1552},
  doi          = {10.3233/FI-2017-1552},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/fuin/BonizzoniCVRT17.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/BonizzoniVPPR17,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  title        = {{FSG:} Fast String Graph Construction for De Novo Assembly},
  journal      = {J. Comput. Biol.},
  volume       = {24},
  number       = {10},
  pages        = {953--968},
  year         = {2017},
  url          = {https://doi.org/10.1089/cmb.2017.0089},
  doi          = {10.1089/CMB.2017.0089},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jcb/BonizzoniVPPR17.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcs/BonizzoniCVRT17,
  author       = {Paola Bonizzoni and
                  Anna Paola Carrieri and
                  Gianluca Della Vedova and
                  Raffaella Rizzi and
                  Gabriella Trucco},
  title        = {A colored graph approach to perfect phylogeny with persistent characters},
  journal      = {Theor. Comput. Sci.},
  volume       = {658},
  pages        = {60--73},
  year         = {2017},
  url          = {https://doi.org/10.1016/j.tcs.2016.08.015},
  doi          = {10.1016/J.TCS.2016.08.015},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/tcs/BonizzoniCVRT17.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/BonizzoniCVS17,
  author       = {Paola Bonizzoni and
                  Simone Ciccolella and
                  Gianluca Della Vedova and
                  Mauricio Soto Gomez},
  editor       = {Nurit Haspel and
                  Lenore J. Cowen and
                  Amarda Shehu and
                  Tamer Kahveci and
                  Giuseppe Pozzi},
  title        = {Beyond Perfect Phylogeny: Multisample Phylogeny Reconstruction via
                  {ILP}},
  booktitle    = {Proceedings of the 8th {ACM} International Conference on Bioinformatics,
                  Computational Biology, and Health Informatics, {BCB} 2017, Boston,
                  MA, USA, August 20-23, 2017},
  pages        = {1--10},
  publisher    = {{ACM}},
  year         = {2017},
  url          = {https://doi.org/10.1145/3107411.3107441},
  doi          = {10.1145/3107411.3107441},
  timestamp    = {Wed, 16 Oct 2019 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/bcb/BonizzoniCVS17.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cie/VedovaPRS17,
  author       = {Gianluca Della Vedova and
                  Murray Patterson and
                  Raffaella Rizzi and
                  Mauricio Soto Gomez},
  editor       = {Jarkko Kari and
                  Florin Manea and
                  Ion Petre},
  title        = {Character-Based Phylogeny Construction and Its Application to Tumor
                  Evolution},
  booktitle    = {Unveiling Dynamics and Complexity - 13th Conference on Computability
                  in Europe, CiE 2017, Turku, Finland, June 12-16, 2017, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {10307},
  pages        = {3--13},
  publisher    = {Springer},
  year         = {2017},
  url          = {https://doi.org/10.1007/978-3-319-58741-7\_1},
  doi          = {10.1007/978-3-319-58741-7\_1},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/cie/VedovaPRS17.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/BonizzoniVPPR17,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  title        = {Computing the {BWT} and {LCP} array of a Set of Strings in External
                  Memory},
  journal      = {CoRR},
  volume       = {abs/1705.07756},
  year         = {2017},
  url          = {http://arxiv.org/abs/1705.07756},
  eprinttype    = {arXiv},
  eprint       = {1705.07756},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/BonizzoniVPPR17.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/BonizzoniVPPR16,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  title        = {{LSG:} An External-Memory Tool to Compute String Graphs for Next-Generation
                  Sequencing Data Assembly},
  journal      = {J. Comput. Biol.},
  volume       = {23},
  number       = {3},
  pages        = {137--149},
  year         = {2016},
  url          = {https://doi.org/10.1089/cmb.2015.0172},
  doi          = {10.1089/CMB.2015.0172},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jcb/BonizzoniVPPR16.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    = {Thu, 25 May 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/nar/IsonRMKRCABBBBB16.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/isbra/BonizzoniVPPR16,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  editor       = {Anu G. Bourgeois and
                  Pavel Skums and
                  Xiang Wan and
                  Alex Zelikovsky},
  title        = {{FSG:} Fast String Graph Construction for De Novo Assembly of Reads
                  Data},
  booktitle    = {Bioinformatics Research and Applications - 12th International Symposium,
                  {ISBRA} 2016, Minsk, Belarus, June 5-8, 2016, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {9683},
  pages        = {27--39},
  publisher    = {Springer},
  year         = {2016},
  url          = {https://doi.org/10.1007/978-3-319-38782-6\_3},
  doi          = {10.1007/978-3-319-38782-6\_3},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/isbra/BonizzoniVPPR16.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/BonizzoniVPPR16,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  title        = {{FSG:} Fast String Graph Construction for De Novo Assembly of Reads
                  Data},
  journal      = {CoRR},
  volume       = {abs/1604.03587},
  year         = {2016},
  url          = {http://arxiv.org/abs/1604.03587},
  eprinttype    = {arXiv},
  eprint       = {1604.03587},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/BonizzoniVPPR16.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/BonizzoniVNPR16,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Serena Nicosia and
                  Marco Previtali and
                  Raffaella Rizzi},
  title        = {A New Lightweight Algorithm to compute the {BWT} and the {LCP} array
                  of a Set of Strings},
  journal      = {CoRR},
  volume       = {abs/1607.08342},
  year         = {2016},
  url          = {http://arxiv.org/abs/1607.08342},
  eprinttype    = {arXiv},
  eprint       = {1607.08342},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/BonizzoniVNPR16.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/BonizzoniVT16,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Gabriella Trucco},
  title        = {Solving the Persistent Phylogeny Problem in polynomial time},
  journal      = {CoRR},
  volume       = {abs/1611.01017},
  year         = {2016},
  url          = {http://arxiv.org/abs/1611.01017},
  eprinttype    = {arXiv},
  eprint       = {1611.01017},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/BonizzoniVT16.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/BerettaBVPR14,
  author       = {Stefano Beretta and
                  Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Raffaella Rizzi},
  title        = {Modeling Alternative Splicing Variants from RNA-Seq Data with Isoform
                  Graphs},
  journal      = {J. Comput. Biol.},
  volume       = {21},
  number       = {1},
  pages        = {16--40},
  year         = {2014},
  url          = {https://doi.org/10.1089/cmb.2013.0112},
  doi          = {10.1089/CMB.2013.0112},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jcb/BerettaBVPR14.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wabi/BonizzoniVPPR14,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  editor       = {Daniel G. Brown and
                  Burkhard Morgenstern},
  title        = {Constructing String Graphs in External Memory},
  booktitle    = {Algorithms in Bioinformatics - 14th International Workshop, {WABI}
                  2014, Wroclaw, Poland, September 8-10, 2014. Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {8701},
  pages        = {311--325},
  publisher    = {Springer},
  year         = {2014},
  url          = {https://doi.org/10.1007/978-3-662-44753-6\_23},
  doi          = {10.1007/978-3-662-44753-6\_23},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/wabi/BonizzoniVPPR14.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:series/ncs/BonizzoniCVDP14,
  author       = {Paola Bonizzoni and
                  Anna Paola Carrieri and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Teresa M. Przytycka},
  editor       = {Natasa Jonoska and
                  Masahico Saito},
  title        = {When and How the Perfect Phylogeny Model Explains Evolution},
  booktitle    = {Discrete and Topological Models in Molecular Biology},
  series       = {Natural Computing Series},
  pages        = {67--83},
  publisher    = {Springer},
  year         = {2014},
  url          = {https://doi.org/10.1007/978-3-642-40193-0\_4},
  doi          = {10.1007/978-3-642-40193-0\_4},
  timestamp    = {Thu, 23 Jun 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/series/ncs/BonizzoniCVDP14.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/BonizzoniCVT14,
  author       = {Paola Bonizzoni and
                  Anna Paola Carrieri and
                  Gianluca Della Vedova and
                  Gabriella Trucco},
  title        = {Algorithms for the Constrained Perfect Phylogeny with Persistent Characters},
  journal      = {CoRR},
  volume       = {abs/1405.7497},
  year         = {2014},
  url          = {http://arxiv.org/abs/1405.7497},
  eprinttype    = {arXiv},
  eprint       = {1405.7497},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/BonizzoniCVT14.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/BonizzoniVPPR14,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Marco Previtali and
                  Raffaella Rizzi},
  title        = {Constructing String Graphs in External Memory},
  journal      = {CoRR},
  volume       = {abs/1405.7520},
  year         = {2014},
  url          = {http://arxiv.org/abs/1405.7520},
  eprinttype    = {arXiv},
  eprint       = {1405.7520},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/BonizzoniVPPR14.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jco/BonizzoniVDP13,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Yuri Pirola},
  title        = {Parameterized complexity of k-anonymity: hardness and tractability},
  journal      = {J. Comb. Optim.},
  volume       = {26},
  number       = {1},
  pages        = {19--43},
  year         = {2013},
  url          = {https://doi.org/10.1007/s10878-011-9428-9},
  doi          = {10.1007/S10878-011-9428-9},
  timestamp    = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jco/BonizzoniVDP13.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bcb/PirolaVBSB13,
  author       = {Yuri Pirola and
                  Gianluca Della Vedova and
                  Paola Bonizzoni and
                  Alessandra Stella and
                  Filippo Biscarini},
  editor       = {Jing Gao},
  title        = {Haplotype-based prediction of gene alleles using pedigrees and {SNP}
                  genotypes},
  booktitle    = {{ACM} Conference on Bioinformatics, Computational Biology and Biomedical
                  Informatics. {ACM-BCB} 2013, Washington, DC, USA, September 22-25,
                  2013},
  pages        = {33},
  publisher    = {{ACM}},
  year         = {2013},
  url          = {https://doi.org/10.1145/2506583.2506592},
  doi          = {10.1145/2506583.2506592},
  timestamp    = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/bcb/PirolaVBSB13.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/PirolaRPPVB12,
  author       = {Yuri Pirola and
                  Raffaella Rizzi and
                  Ernesto Picardi and
                  Graziano Pesole and
                  Gianluca Della Vedova and
                  Paola Bonizzoni},
  title        = {PIntron: a fast method for detecting the gene structure due to alternative
                  splicing via maximal pairings of a pattern and a text},
  journal      = {{BMC} Bioinform.},
  volume       = {13},
  number       = {{S-5}},
  pages        = {S2},
  year         = {2012},
  url          = {https://doi.org/10.1186/1471-2105-13-S5-S2},
  doi          = {10.1186/1471-2105-13-S5-S2},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/bmcbi/PirolaRPPVB12.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/PirolaVBSB12,
  author       = {Yuri Pirola and
                  Gianluca Della Vedova and
                  Stefano Biffani and
                  Alessandra Stella and
                  Paola Bonizzoni},
  title        = {A Fast and Practical Approach to Genotype Phasing and Imputation on
                  a Pedigree with Erroneous and Incomplete Information},
  journal      = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
  volume       = {9},
  number       = {6},
  pages        = {1582--1594},
  year         = {2012},
  url          = {https://doi.org/10.1109/TCBB.2012.100},
  doi          = {10.1109/TCBB.2012.100},
  timestamp    = {Mon, 03 Apr 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/tcbb/PirolaVBSB12.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcs/BonizzoniVD12,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi},
  title        = {A randomized {PTAS} for the minimum Consensus Clustering with a fixed
                  number of clusters},
  journal      = {Theor. Comput. Sci.},
  volume       = {429},
  pages        = {36--45},
  year         = {2012},
  url          = {https://doi.org/10.1016/j.tcs.2011.12.022},
  doi          = {10.1016/J.TCS.2011.12.022},
  timestamp    = {Wed, 17 Feb 2021 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/tcs/BonizzoniVD12.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/BerettaBRV12,
  author       = {Stefano Beretta and
                  Paola Bonizzoni and
                  Raffaella Rizzi and
                  Gianluca Della Vedova},
  title        = {Reconstructing isoform graphs from RNA-Seq data},
  booktitle    = {2012 {IEEE} International Conference on Bioinformatics and Biomedicine,
                  {BIBM} 2012, Philadelphia, PA, USA, October 4-7, 2012},
  pages        = {1--4},
  publisher    = {{IEEE} Computer Society},
  year         = {2012},
  url          = {https://doi.org/10.1109/BIBM.2012.6392734},
  doi          = {10.1109/BIBM.2012.6392734},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/bibm/BerettaBRV12.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/PirolaVBSB12,
  author       = {Yuri Pirola and
                  Gianluca Della Vedova and
                  Stefano Biffani and
                  Alessandra Stella and
                  Paola Bonizzoni},
  editor       = {Sorin Istrail and
                  Ion I. Mandoiu and
                  Mihai Pop and
                  Sanguthevar Rajasekaran and
                  John L. Spouge},
  title        = {A fast and practical approach to genotype phasing and imputation on
                  a pedigree with erroneous and incomplete information},
  booktitle    = {{IEEE} 2nd International Conference on Computational Advances in Bio
                  and Medical Sciences, {ICCABS} 2012, Las Vegas, NV, USA, February
                  23-25, 2012},
  pages        = {1--6},
  publisher    = {{IEEE} Computer Society},
  year         = {2012},
  url          = {https://doi.org/10.1109/ICCABS.2012.6182643},
  doi          = {10.1109/ICCABS.2012.6182643},
  timestamp    = {Thu, 23 Mar 2023 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/conf/iccabs/PirolaVBSB12.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1203-4732,
  author       = {Paola Bonizzoni and
                  Peter J. Cameron and
                  Gianluca Della Vedova and
                  Alberto Leporati and
                  Giancarlo Mauri},
  title        = {A Unifying Framework to Characterize the Power of a Language to Express
                  Relations},
  journal      = {CoRR},
  volume       = {abs/1203.4732},
  year         = {2012},
  url          = {http://arxiv.org/abs/1203.4732},
  eprinttype    = {arXiv},
  eprint       = {1203.4732},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-1203-4732.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/RueggerVJB11,
  author       = {Paul M. Ruegger and
                  Gianluca Della Vedova and
                  Tao Jiang and
                  James Borneman},
  title        = {Improving Probe Set Selection for Microbial Community Analysis by
                  Leveraging Taxonomic Information of Training Sequences},
  journal      = {{BMC} Bioinform.},
  volume       = {12},
  pages        = {394},
  year         = {2011},
  url          = {https://doi.org/10.1186/1471-2105-12-394},
  doi          = {10.1186/1471-2105-12-394},
  timestamp    = {Sun, 15 Mar 2020 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/bmcbi/RueggerVJB11.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jco/BonizzoniVD11,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi},
  title        = {Anonymizing binary and small tables is hard to approximate},
  journal      = {J. Comb. Optim.},
  volume       = {22},
  number       = {1},
  pages        = {97--119},
  year         = {2011},
  url          = {https://doi.org/10.1007/s10878-009-9277-y},
  doi          = {10.1007/S10878-009-9277-Y},
  timestamp    = {Tue, 06 Jun 2017 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jco/BonizzoniVD11.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccabs/BonizzoniVPR11,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Yuri Pirola and
                  Raffaella Rizzi},
  editor       = {Ion I. Mandoiu and
                  Satoru Miyano and
                  Teresa M. Przytycka and
                  Sanguthevar Rajasekaran},
  title        = {PIntron: {A} fast method for gene structure prediction via maximal
                  pairings of a pattern and a text},
  booktitle    = {{IEEE} 1st International Conference on Computational Advances in Bio
                  and Medical Sciences, {ICCABS} 2011, Orlando, FL, USA, February 3-5,
                  2011},
  pages        = {33--39},
  publisher    = {{IEEE} Computer Society},
  year         = {2011},
  url          = {https://doi.org/10.1109/ICCABS.2011.5729935},
  doi          = {10.1109/ICCABS.2011.5729935},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/iccabs/BonizzoniVPR11.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1107-3724,
  author       = {Yuri Pirola and
                  Gianluca Della Vedova and
                  Stefano Biffani and
                  Alessandra Stella and
                  Paola Bonizzoni},
  title        = {Haplotype Inference on Pedigrees with Recombinations, Errors, and
                  Missing Genotypes via {SAT} solvers},
  journal      = {CoRR},
  volume       = {abs/1107.3724},
  year         = {2011},
  url          = {http://arxiv.org/abs/1107.3724},
  eprinttype    = {arXiv},
  eprint       = {1107.3724},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-1107-3724.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1108-0047,
  author       = {Stefano Beretta and
                  Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Raffaella Rizzi},
  title        = {Predicting Variants of Alternative Splicing from {NGS} data without
                  the Genome},
  journal      = {CoRR},
  volume       = {abs/1108.0047},
  year         = {2011},
  url          = {http://arxiv.org/abs/1108.0047},
  eprinttype    = {arXiv},
  eprint       = {1108.0047},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-1108-0047.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/algorithmica/BonizzoniVDM10,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Giancarlo Mauri},
  title        = {Fingerprint Clustering with Bounded Number of Missing Values},
  journal      = {Algorithmica},
  volume       = {58},
  number       = {2},
  pages        = {282--303},
  year         = {2010},
  url          = {https://doi.org/10.1007/s00453-008-9265-0},
  doi          = {10.1007/S00453-008-9265-0},
  timestamp    = {Fri, 30 Nov 2018 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/algorithmica/BonizzoniVDM10.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ipl/BonizzoniVDP10,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Yuri Pirola},
  title        = {Variants of constrained longest common subsequence},
  journal      = {Inf. Process. Lett.},
  volume       = {110},
  number       = {20},
  pages        = {877--881},
  year         = {2010},
  url          = {https://doi.org/10.1016/j.ipl.2010.07.015},
  doi          = {10.1016/J.IPL.2010.07.015},
  timestamp    = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/ipl/BonizzoniVDP10.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nc/VedovaDJPPW10,
  author       = {Gianluca Della Vedova and
                  Riccardo Dondi and
                  Tao Jiang and
                  Giulio Pavesi and
                  Yuri Pirola and
                  Lusheng Wang},
  title        = {Beyond evolutionary trees},
  journal      = {Nat. Comput.},
  volume       = {9},
  number       = {2},
  pages        = {421--435},
  year         = {2010},
  url          = {https://doi.org/10.1007/s11047-009-9156-6},
  doi          = {10.1007/S11047-009-9156-6},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/nc/VedovaDJPPW10.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/BonizzoniVDPR10,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Yuri Pirola and
                  Romeo Rizzi},
  title        = {Pure Parsimony Xor Haplotyping},
  journal      = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
  volume       = {7},
  number       = {4},
  pages        = {598--610},
  year         = {2010},
  url          = {https://doi.org/10.1109/TCBB.2010.52},
  doi          = {10.1109/TCBB.2010.52},
  timestamp    = {Mon, 03 Apr 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/tcbb/BonizzoniVDPR10.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iwoca/BonizzoniVDP10,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Yuri Pirola},
  editor       = {Costas S. Iliopoulos and
                  William F. Smyth},
  title        = {Parameterized Complexity of \emph{k}-Anonymity: Hardness and Tractability},
  booktitle    = {Combinatorial Algorithms - 21st International Workshop, {IWOCA} 2010,
                  London, UK, July 26-28, 2010, Revised Selected Papers},
  series       = {Lecture Notes in Computer Science},
  volume       = {6460},
  pages        = {242--255},
  publisher    = {Springer},
  year         = {2010},
  url          = {https://doi.org/10.1007/978-3-642-19222-7\_25},
  doi          = {10.1007/978-3-642-19222-7\_25},
  timestamp    = {Mon, 15 Jun 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/iwoca/BonizzoniVDP10.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1001-1210,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Yuri Pirola and
                  Romeo Rizzi},
  title        = {Pure Parsimony Xor Haplotyping},
  journal      = {CoRR},
  volume       = {abs/1001.1210},
  year         = {2010},
  url          = {http://arxiv.org/abs/1001.1210},
  eprinttype    = {arXiv},
  eprint       = {1001.1210},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-1001-1210.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/fct/BonizzoniVD09,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi},
  editor       = {Miroslaw Kutylowski and
                  Witold Charatonik and
                  Maciej Gebala},
  title        = {The \emph{k}-Anonymity Problem Is Hard},
  booktitle    = {Fundamentals of Computation Theory, 17th International Symposium,
                  {FCT} 2009, Wroclaw, Poland, September 2-4, 2009. Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {5699},
  pages        = {26--37},
  publisher    = {Springer},
  year         = {2009},
  url          = {https://doi.org/10.1007/978-3-642-03409-1\_4},
  doi          = {10.1007/978-3-642-03409-1\_4},
  timestamp    = {Tue, 14 May 2019 10:00:53 +0200},
  biburl       = {https://dblp.org/rec/conf/fct/BonizzoniVD09.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ictcs/BonizzoniVD09,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi},
  editor       = {Alessandra Cherubini and
                  Mario Coppo and
                  Giuseppe Persiano},
  title        = {A {PTAS} for the Minimum Consensus Clustering Problem with a Fixed
                  Number of Clusters},
  booktitle    = {Theoretical Computer Science, 11th Italian Conference, {ICTCS} 2009,
                  Cremona, Italy, September 28-30, 2009, Proceedings},
  pages        = {55--58},
  year         = {2009},
  timestamp    = {Tue, 28 May 2013 14:21:59 +0200},
  biburl       = {https://dblp.org/rec/conf/ictcs/BonizzoniVD09.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/isbra/BonizzoniVDPR09,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Yuri Pirola and
                  Romeo Rizzi},
  editor       = {Ion I. Mandoiu and
                  Giri Narasimhan and
                  Yanqing Zhang},
  title        = {Pure Parsimony Xor Haplotyping},
  booktitle    = {Bioinformatics Research and Applications, 5th International Symposium,
                  {ISBRA} 2009, Fort Lauderdale, FL, USA, May 13-16, 2009, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {5542},
  pages        = {186--197},
  publisher    = {Springer},
  year         = {2009},
  url          = {https://doi.org/10.1007/978-3-642-01551-9\_19},
  doi          = {10.1007/978-3-642-01551-9\_19},
  timestamp    = {Fri, 24 Mar 2023 16:31:04 +0100},
  biburl       = {https://dblp.org/rec/conf/isbra/BonizzoniVDPR09.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wabi/BonizzoniVDPR09,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Yuri Pirola and
                  Raffaella Rizzi},
  editor       = {Steven Salzberg and
                  Tandy J. Warnow},
  title        = {Minimum Factorization Agreement of Spliced ESTs},
  booktitle    = {Algorithms in Bioinformatics, 9th International Workshop, {WABI} 2009,
                  Philadelphia, PA, USA, September 12-13, 2009. Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {5724},
  pages        = {1--12},
  publisher    = {Springer},
  year         = {2009},
  url          = {https://doi.org/10.1007/978-3-642-04241-6\_1},
  doi          = {10.1007/978-3-642-04241-6\_1},
  timestamp    = {Mon, 26 Jun 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/wabi/BonizzoniVDPR09.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-0907-1840,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi},
  title        = {A {PTAS} for the Minimum Consensus Clustering Problem with a Fixed
                  Number of Clusters},
  journal      = {CoRR},
  volume       = {abs/0907.1840},
  year         = {2009},
  url          = {http://arxiv.org/abs/0907.1840},
  eprinttype    = {arXiv},
  eprint       = {0907.1840},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-0907-1840.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-0910-3148,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Yuri Pirola},
  title        = {Parameterized Complexity of the k-anonymity Problem},
  journal      = {CoRR},
  volume       = {abs/0910.3148},
  year         = {2009},
  url          = {http://arxiv.org/abs/0910.3148},
  eprinttype    = {arXiv},
  eprint       = {0910.3148},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-0910-3148.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-0912-0368,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Yuri Pirola},
  title        = {Variants of Constrained Longest Common Subsequence},
  journal      = {CoRR},
  volume       = {abs/0912.0368},
  year         = {2009},
  url          = {http://arxiv.org/abs/0912.0368},
  eprinttype    = {arXiv},
  eprint       = {0912.0368},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-0912-0368.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcss/BonizzoniVDJ08,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Tao Jiang},
  title        = {On the Approximation of Correlation Clustering and Consensus Clustering},
  journal      = {J. Comput. Syst. Sci.},
  volume       = {74},
  number       = {5},
  pages        = {671--696},
  year         = {2008},
  url          = {https://doi.org/10.1016/j.jcss.2007.06.024},
  doi          = {10.1016/J.JCSS.2007.06.024},
  timestamp    = {Thu, 23 Jun 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jcss/BonizzoniVDJ08.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/BonizzoniVDFRV07,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Guillaume Fertin and
                  Raffaella Rizzi and
                  St{\'{e}}phane Vialette},
  title        = {Exemplar Longest Common Subsequence},
  journal      = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
  volume       = {4},
  number       = {4},
  pages        = {535--543},
  year         = {2007},
  url          = {https://doi.org/10.1109/TCBB.2007.1066},
  doi          = {10.1109/TCBB.2007.1066},
  timestamp    = {Mon, 28 Aug 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/tcbb/BonizzoniVDFRV07.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-0707-0421,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi},
  title        = {Anonymizing Binary Tables is APX-hard},
  journal      = {CoRR},
  volume       = {abs/0707.0421},
  year         = {2007},
  url          = {http://arxiv.org/abs/0707.0421},
  eprinttype    = {arXiv},
  eprint       = {0707.0421},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-0707-0421.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cpm/BonizzoniVDM06,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Giancarlo Mauri},
  editor       = {Moshe Lewenstein and
                  Gabriel Valiente},
  title        = {Fingerprint Clustering with Bounded Number of Missing Values},
  booktitle    = {Combinatorial Pattern Matching, 17th Annual Symposium, {CPM} 2006,
                  Barcelona, Spain, July 5-7, 2006, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {4009},
  pages        = {106--116},
  publisher    = {Springer},
  year         = {2006},
  url          = {https://doi.org/10.1007/11780441\_11},
  doi          = {10.1007/11780441\_11},
  timestamp    = {Tue, 14 May 2019 10:00:38 +0200},
  biburl       = {https://dblp.org/rec/conf/cpm/BonizzoniVDM06.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccS/BonizzoniVDFV06,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Guillaume Fertin and
                  St{\'{e}}phane Vialette},
  editor       = {Vassil N. Alexandrov and
                  G. Dick van Albada and
                  Peter M. A. Sloot and
                  Jack J. Dongarra},
  title        = {Exemplar Longest Common Subsequence},
  booktitle    = {Computational Science - {ICCS} 2006, 6th International Conference,
                  Reading, UK, May 28-31, 2006, Proceedings, Part {II}},
  series       = {Lecture Notes in Computer Science},
  volume       = {3992},
  pages        = {622--629},
  publisher    = {Springer},
  year         = {2006},
  url          = {https://doi.org/10.1007/11758525\_85},
  doi          = {10.1007/11758525\_85},
  timestamp    = {Tue, 14 May 2019 10:00:48 +0200},
  biburl       = {https://dblp.org/rec/conf/iccS/BonizzoniVDFV06.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijbra/BonizzoniVDM05,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Lorenzo Mariani},
  title        = {Experimental analysis of a new algorithm for partial haplotype completion},
  journal      = {Int. J. Bioinform. Res. Appl.},
  volume       = {1},
  number       = {4},
  pages        = {461--473},
  year         = {2005},
  url          = {https://doi.org/10.1504/IJBRA.2005.008448},
  doi          = {10.1504/IJBRA.2005.008448},
  timestamp    = {Fri, 11 Sep 2020 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/ijbra/BonizzoniVDM05.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcs/BonizzoniVD05,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi},
  title        = {Reconciling a gene tree to a species tree under the duplication cost
                  model},
  journal      = {Theor. Comput. Sci.},
  volume       = {347},
  number       = {1-2},
  pages        = {36--53},
  year         = {2005},
  url          = {https://doi.org/10.1016/j.tcs.2005.05.016},
  doi          = {10.1016/J.TCS.2005.05.016},
  timestamp    = {Wed, 17 Feb 2021 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/tcs/BonizzoniVD05.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccS/BonizzoniVDM05,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Lorenzo Mariani},
  editor       = {Vaidy S. Sunderam and
                  G. Dick van Albada and
                  Peter M. A. Sloot and
                  Jack J. Dongarra},
  title        = {Experimental Analysis of a New Algorithm for Partial Haplotype Completion},
  booktitle    = {Computational Science - {ICCS} 2005, 5th International Conference,
                  Atlanta, GA, USA, May 22-25, 2005, Proceedings, Part {II}},
  series       = {Lecture Notes in Computer Science},
  volume       = {3515},
  pages        = {952--959},
  publisher    = {Springer},
  year         = {2005},
  url          = {https://doi.org/10.1007/11428848\_121},
  doi          = {10.1007/11428848\_121},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/iccS/BonizzoniVDM05.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/isaac/BonizzoniVDJ05,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Tao Jiang},
  editor       = {Xiaotie Deng and
                  Ding{-}Zhu Du},
  title        = {Correlation Clustering and Consensus Clustering},
  booktitle    = {Algorithms and Computation, 16th International Symposium, {ISAAC}
                  2005, Sanya, Hainan, China, December 19-21, 2005, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {3827},
  pages        = {226--235},
  publisher    = {Springer},
  year         = {2005},
  url          = {https://doi.org/10.1007/11602613\_24},
  doi          = {10.1007/11602613\_24},
  timestamp    = {Thu, 23 Jun 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/isaac/BonizzoniVDJ05.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-cs-0511082,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi},
  title        = {Approximating Clustering of Fingerprint Vectors with Missing Values},
  journal      = {CoRR},
  volume       = {abs/cs/0511082},
  year         = {2005},
  url          = {http://arxiv.org/abs/cs/0511082},
  eprinttype    = {arXiv},
  eprint       = {cs/0511082},
  timestamp    = {Mon, 13 Aug 2018 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/corr/abs-cs-0511082.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/informs/JustV04,
  author       = {Winfried Just and
                  Gianluca Della Vedova},
  title        = {Multiple Sequence Alignment as a Facility-Location Problem},
  journal      = {{INFORMS} J. Comput.},
  volume       = {16},
  number       = {4},
  pages        = {430--440},
  year         = {2004},
  url          = {https://doi.org/10.1287/ijoc.1040.0093},
  doi          = {10.1287/IJOC.1040.0093},
  timestamp    = {Sun, 15 Mar 2020 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/informs/JustV04.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcst/BonizzoniVJ04,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Tao Jiang},
  title        = {Foreword - Special Issue on Bioinformatics},
  journal      = {J. Comput. Sci. Technol.},
  volume       = {19},
  number       = {1},
  pages        = {1},
  year         = {2004},
  url          = {https://doi.org/10.1007/BF02944780},
  doi          = {10.1007/BF02944780},
  timestamp    = {Thu, 23 Jun 2022 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jcst/BonizzoniVJ04.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cmsb/PozziVM04,
  author       = {Sergio Pozzi and
                  Gianluca Della Vedova and
                  Giancarlo Mauri},
  editor       = {Vincent Danos and
                  Vincent Sch{\"{a}}chter},
  title        = {An Explicit Upper Bound for the Approximation Ratio of the Maximum
                  Gene Regulatory Network Problem},
  booktitle    = {Computational Methods in Systems Biology, International Conference,
                  {CMSB} 2004, Paris, France, May 26-28, 2004, Revised Selected Papers},
  series       = {Lecture Notes in Computer Science},
  volume       = {3082},
  pages        = {1--8},
  publisher    = {Springer},
  year         = {2004},
  url          = {https://doi.org/10.1007/978-3-540-25974-9\_1},
  doi          = {10.1007/978-3-540-25974-9\_1},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/cmsb/PozziVM04.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcst/BonizzoniVDL03,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi and
                  Jing Li},
  title        = {The Haplotyping Problem: An Overview of Computational Models and Solutions},
  journal      = {J. Comput. Sci. Technol.},
  volume       = {18},
  number       = {6},
  pages        = {675--688},
  year         = {2003},
  url          = {https://doi.org/10.1007/BF02945456},
  doi          = {10.1007/BF02945456},
  timestamp    = {Fri, 02 Nov 2018 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/jcst/BonizzoniVDL03.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ciac/BonizzoniVD03,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Riccardo Dondi},
  editor       = {Rossella Petreschi and
                  Giuseppe Persiano and
                  Riccardo Silvestri},
  title        = {Reconciling Gene Trees to a Species Tree},
  booktitle    = {Algorithms and Complexity, 5th Italian Conference, {CIAC} 2003, Rome,
                  Italy, May 28-30, 2003, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {2653},
  pages        = {120--131},
  publisher    = {Springer},
  year         = {2003},
  url          = {https://doi.org/10.1007/3-540-44849-7\_18},
  doi          = {10.1007/3-540-44849-7\_18},
  timestamp    = {Thu, 14 Oct 2021 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/ciac/BonizzoniVD03.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/VedovaW02,
  author       = {Gianluca Della Vedova and
                  Todd Wareham},
  title        = {Optimal algorithms for local vertex quartet cleaning},
  journal      = {Bioinform.},
  volume       = {18},
  number       = {10},
  pages        = {1297--1304},
  year         = {2002},
  url          = {https://doi.org/10.1093/bioinformatics/18.10.1297},
  doi          = {10.1093/BIOINFORMATICS/18.10.1297},
  timestamp    = {Mon, 02 Mar 2020 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/bioinformatics/VedovaW02.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/sac/VedovaW02,
  author       = {Gianluca Della Vedova and
                  Todd Wareham},
  editor       = {Gary B. Lamont and
                  Hisham Haddad and
                  George A. Papadopoulos and
                  Brajendra Panda},
  title        = {Optimal algorithms for local vertex quartet cleaning},
  booktitle    = {Proceedings of the 2002 {ACM} Symposium on Applied Computing (SAC),
                  March 10-14, 2002, Madrid, Spain},
  pages        = {173--177},
  publisher    = {{ACM}},
  year         = {2002},
  url          = {https://doi.org/10.1145/508791.508827},
  doi          = {10.1145/508791.508827},
  timestamp    = {Tue, 06 Nov 2018 11:06:47 +0100},
  biburl       = {https://dblp.org/rec/conf/sac/VedovaW02.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/soda/VedovaJLW02,
  author       = {Gianluca Della Vedova and
                  Tao Jiang and
                  Jing Li and
                  Jianjun Wen},
  editor       = {David Eppstein},
  title        = {Approximating minimum quartet inconsistency (abstract)},
  booktitle    = {Proceedings of the Thirteenth Annual {ACM-SIAM} Symposium on Discrete
                  Algorithms, January 6-8, 2002, San Francisco, CA, {USA}},
  pages        = {894--895},
  publisher    = {{ACM/SIAM}},
  year         = {2002},
  url          = {http://dl.acm.org/citation.cfm?id=545381.545497},
  timestamp    = {Thu, 31 Mar 2016 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/soda/VedovaJLW02.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/dam/BonizzoniVM01,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Giancarlo Mauri},
  title        = {Experimenting an approximation algorithm for the {LCS}},
  journal      = {Discret. Appl. Math.},
  volume       = {110},
  number       = {1},
  pages        = {13--24},
  year         = {2001},
  url          = {https://doi.org/10.1016/S0166-218X(00)00300-0},
  doi          = {10.1016/S0166-218X(00)00300-0},
  timestamp    = {Thu, 11 Feb 2021 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/dam/BonizzoniVM01.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcs/BonizzoniV01,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova},
  title        = {The complexity of multiple sequence alignment with SP-score that is
                  a metric},
  journal      = {Theor. Comput. Sci.},
  volume       = {259},
  number       = {1-2},
  pages        = {63--79},
  year         = {2001},
  url          = {https://doi.org/10.1016/S0304-3975(99)00324-2},
  doi          = {10.1016/S0304-3975(99)00324-2},
  timestamp    = {Wed, 17 Feb 2021 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/tcs/BonizzoniV01.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/BornemanCVFJ01,
  author       = {James Borneman and
                  Marek Chrobak and
                  Gianluca Della Vedova and
                  Andres Figueroa and
                  Tao Jiang},
  title        = {Probe selection algorithms with applications in the analysis of microbial
                  communities},
  booktitle    = {Proceedings of the Ninth International Conference on Intelligent Systems
                  for Molecular Biology, July 21-25, 2001, Copenhagen, Denmark},
  pages        = {39--48},
  year         = {2001},
  timestamp    = {Thu, 31 Mar 2016 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/ismb/BornemanCVFJ01.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/sac/BaroneBVM01,
  author       = {Paolo Barone and
                  Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Giancarlo Mauri},
  editor       = {Gary B. Lamont},
  title        = {An approximation algorithm for the shortest common supersequence problem:
                  an experimental analysis},
  booktitle    = {Proceedings of the 2001 {ACM} Symposium on Applied Computing (SAC),
                  March 11-14, 2001, Las Vegas, NV, {USA}},
  pages        = {56--60},
  publisher    = {{ACM}},
  year         = {2001},
  url          = {https://doi.org/10.1145/372202.372275},
  doi          = {10.1145/372202.372275},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/sac/BaroneBVM01.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijfcs/BonizzoniVM00,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Giancarlo Mauri},
  title        = {Approximating the Maximum Isomorphic Agreement Subtree is Hard},
  journal      = {Int. J. Found. Comput. Sci.},
  volume       = {11},
  number       = {4},
  pages        = {579--590},
  year         = {2000},
  url          = {https://doi.org/10.1142/S0129054100000363},
  doi          = {10.1142/S0129054100000363},
  timestamp    = {Wed, 14 Nov 2018 00:00:00 +0100},
  biburl       = {https://dblp.org/rec/journals/ijfcs/BonizzoniVM00.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cpm/BonizzoniVM00,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova and
                  Giancarlo Mauri},
  editor       = {Raffaele Giancarlo and
                  David Sankoff},
  title        = {Approximating the Maximum Isomorphic Agreement Subtree Is Hard},
  booktitle    = {Combinatorial Pattern Matching, 11th Annual Symposium, {CPM} 2000,
                  Montreal, Canada, June 21-23, 2000, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {1848},
  pages        = {119--128},
  publisher    = {Springer},
  year         = {2000},
  url          = {https://doi.org/10.1007/3-540-45123-4\_12},
  doi          = {10.1007/3-540-45123-4\_12},
  timestamp    = {Sat, 30 Sep 2023 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/cpm/BonizzoniVM00.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/stringology/JustV00,
  author       = {Winfried Just and
                  Gianluca Della Vedova},
  title        = {Multiple Sequence Alignment as a Facility Location Problem},
  booktitle    = {Proceedings of the Prague Stringology Club Workshop 2000, Prague,
                  Czech Republic, September 2, 2000},
  pages        = {60--70},
  publisher    = {Department of Computer Science and Engineering, Faculty of Electrical
                  Engineering, Czech Technical University},
  year         = {2000},
  url          = {http://www.stringology.org/event/2000/p6.html},
  timestamp    = {Wed, 10 Feb 2021 08:42:22 +0100},
  biburl       = {https://dblp.org/rec/conf/stringology/JustV00.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jal/BonizzoniV99,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova},
  title        = {An Algorithm for the Modular Decomposition of Hypergraphs},
  journal      = {J. Algorithms},
  volume       = {32},
  number       = {2},
  pages        = {65--86},
  year         = {1999},
  url          = {https://doi.org/10.1006/jagm.1999.1016},
  doi          = {10.1006/JAGM.1999.1016},
  timestamp    = {Tue, 06 Jun 2017 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/journals/jal/BonizzoniV99.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wg/BonizzoniV95,
  author       = {Paola Bonizzoni and
                  Gianluca Della Vedova},
  editor       = {Manfred Nagl},
  title        = {Modular Decomposition of Hypergraphs},
  booktitle    = {Graph-Theoretic Concepts in Computer Science, 21st International Workshop,
                  {WG} '95, Aachen, Germany, June 20-22, 1995, Proceedings},
  series       = {Lecture Notes in Computer Science},
  volume       = {1017},
  pages        = {303--317},
  publisher    = {Springer},
  year         = {1995},
  url          = {https://doi.org/10.1007/3-540-60618-1\_84},
  doi          = {10.1007/3-540-60618-1\_84},
  timestamp    = {Thu, 14 Oct 2021 10:32:32 +0200},
  biburl       = {https://dblp.org/rec/conf/wg/BonizzoniV95.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}
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