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ORCIDBibTeX records: Raffaella Rizzi
@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}
}
@article{DBLP:journals/isci/BonizzoniCFPPPR22,
author = {Paola Bonizzoni and
Matteo Costantini and
Clelia de Felice and
Alessia Petescia and
Yuri Pirola and
Marco Previtali and
Raffaella Rizzi and
Jens Stoye and
Rocco Zaccagnino and
Rosalba Zizza},
title = {Numeric Lyndon-based feature embedding of sequencing reads for machine
learning approaches},
journal = {Inf. Sci.},
volume = {607},
pages = {458--476},
year = {2022},
url = {https://doi.org/10.1016/j.ins.2022.06.005},
doi = {10.1016/J.INS.2022.06.005},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/isci/BonizzoniCFPPPR22.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}
}
@inproceedings{DBLP:conf/dlt/BonizzoniFPRZZ22,
author = {Paola Bonizzoni and
Clelia De Felice and
Yuri Pirola and
Raffaella Rizzi and
Rocco Zaccagnino and
Rosalba Zizza},
editor = {Volker Diekert and
Mikhail V. Volkov},
title = {Can Formal Languages Help Pangenomics to Represent and Analyze Multiple
Genomes?},
booktitle = {Developments in Language Theory - 26th International Conference, {DLT}
2022, Tampa, FL, USA, May 9-13, 2022, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {13257},
pages = {3--12},
publisher = {Springer},
year = {2022},
url = {https://doi.org/10.1007/978-3-031-05578-2\_1},
doi = {10.1007/978-3-031-05578-2\_1},
timestamp = {Thu, 09 Nov 2023 20:20:35 +0100},
biburl = {https://dblp.org/rec/conf/dlt/BonizzoniFPRZZ22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iwbbio/BonizzoniPPRZZ22,
author = {Paola Bonizzoni and
Alessia Petescia and
Yuri Pirola and
Raffaella Rizzi and
Rocco Zaccagnino and
Rosalba Zizza},
editor = {Ignacio Rojas and
Olga Valenzuela and
Fernando Rojas and
Luis Javier Herrera and
Francisco M. Ortu{\~{n}}o},
title = {KFinger: Capturing Overlaps Between Long Reads by Using Lyndon Fingerprints},
booktitle = {Bioinformatics and Biomedical Engineering - 9th International Work-Conference,
{IWBBIO} 2022, Maspalomas, Gran Canaria, Spain, June 27-30, 2022,
Proceedings, Part {II}},
series = {Lecture Notes in Computer Science},
volume = {13347},
pages = {436--449},
publisher = {Springer},
year = {2022},
url = {https://doi.org/10.1007/978-3-031-07802-6\_37},
doi = {10.1007/978-3-031-07802-6\_37},
timestamp = {Tue, 26 Dec 2023 17:13:20 +0100},
biburl = {https://dblp.org/rec/conf/iwbbio/BonizzoniPPRZZ22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2202-13884,
author = {Paola Bonizzoni and
Matteo Costantini and
Clelia De Felice and
Alessia Petescia and
Yuri Pirola and
Marco Previtali and
Raffaella Rizzi and
Jens Stoye and
Rocco Zaccagnino and
Rosalba Zizza},
title = {Numeric Lyndon-based feature embedding of sequencing reads for machine
learning approaches},
journal = {CoRR},
volume = {abs/2202.13884},
year = {2022},
url = {https://arxiv.org/abs/2202.13884},
eprinttype = {arXiv},
eprint = {2202.13884},
timestamp = {Thu, 03 Mar 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2202-13884.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/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}
}
@inproceedings{DBLP:conf/alcob/BonizzoniFPPRSZ21,
author = {Paola Bonizzoni and
Clelia De Felice and
Alessia Petescia and
Yuri Pirola and
Raffaella Rizzi and
Jens Stoye and
Rocco Zaccagnino and
Rosalba Zizza},
editor = {Carlos Mart{\'{\i}}n{-}Vide and
Miguel A. Vega{-}Rodr{\'{\i}}guez and
Travis J. Wheeler},
title = {Can We Replace Reads by Numeric Signatures? Lyndon Fingerprints as
Representations of Sequencing Reads for Machine Learning},
booktitle = {Algorithms for Computational Biology - 8th International Conference,
AlCoB 2021, Missoula, MT, USA, June 7-11, 2021, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {12715},
pages = {16--28},
publisher = {Springer},
year = {2021},
url = {https://doi.org/10.1007/978-3-030-74432-8\_2},
doi = {10.1007/978-3-030-74432-8\_2},
timestamp = {Tue, 15 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/alcob/BonizzoniFPPRSZ21.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/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}
}
@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/alcob/0001BDPR17,
author = {Stefano Beretta and
Paola Bonizzoni and
Luca Denti and
Marco Previtali and
Raffaella Rizzi},
editor = {Daniel Figueiredo and
Carlos Mart{\'{\i}}n{-}Vide and
Diogo Pratas and
Miguel A. Vega{-}Rodr{\'{\i}}guez},
title = {Mapping RNA-seq Data to a Transcript Graph via Approximate Pattern
Matching to a Hypertext},
booktitle = {Algorithms for Computational Biology - 4th International Conference,
AlCoB 2017, Aveiro, Portugal, June 5-6, 2017, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {10252},
pages = {49--61},
publisher = {Springer},
year = {2017},
url = {https://doi.org/10.1007/978-3-319-58163-7\_3},
doi = {10.1007/978-3-319-58163-7\_3},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/alcob/0001BDPR17.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}
}
@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/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}
}
@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/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}
}
@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}
}
@article{DBLP:journals/nar/MartelliDBCDMFFLMMPPRRVZZCP11,
author = {Pier Luigi Martelli and
Mattia D'Antonio and
Paola Bonizzoni and
Tiziana Castrignan{\`{o}} and
Anna Maria D'Erchia and
Paolo D'Onorio De Meo and
Piero Fariselli and
Michele Finelli and
Flavio Licciulli and
Marina Mangiulli and
Flavio Mignone and
Giulio Pavesi and
Ernesto Picardi and
Raffaella Rizzi and
Ivan Rossi and
Alessio Valletti and
Andrea Zauli and
Federico Zambelli and
Rita Casadio and
Graziano Pesole},
title = {ASPicDB: a database of annotated transcript and protein variants generated
by alternative splicing},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Database-Issue},
pages = {80--85},
year = {2011},
url = {https://doi.org/10.1093/nar/gkq1073},
doi = {10.1093/NAR/GKQ1073},
timestamp = {Mon, 05 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/MartelliDBCDMFFLMMPPRRVZZCP11.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-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/jcb/BonizzoniMPPPR09,
author = {Paola Bonizzoni and
Giancarlo Mauri and
Graziano Pesole and
Ernesto Picardi and
Yuri Pirola and
Raffaella Rizzi},
title = {Detecting Alternative Gene Structures from Spliced ESTs: {A} Computational
Approach},
journal = {J. Comput. Biol.},
volume = {16},
number = {1},
pages = {43--66},
year = {2009},
url = {https://doi.org/10.1089/cmb.2008.0028},
doi = {10.1089/CMB.2008.0028},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcb/BonizzoniMPPPR09.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/bioinformatics/CastrignanoDACMDLMMPPRRBP08,
author = {Tiziana Castrignan{\`{o}} and
Mattia D'Antonio and
Anna Anselmo and
Danilo Carrabino and
A. D'Onorio De Meo and
Anna Maria D'Erchia and
Flavio Licciulli and
Marina Mangiulli and
Flavio Mignone and
Giulio Pavesi and
Ernesto Picardi and
Alberto Riva and
Raffaella Rizzi and
Paola Bonizzoni and
Graziano Pesole},
title = {ASPicDB: {A} database resource for alternative splicing analysis},
journal = {Bioinform.},
volume = {24},
number = {10},
pages = {1300--1304},
year = {2008},
url = {https://doi.org/10.1093/bioinformatics/btn113},
doi = {10.1093/BIOINFORMATICS/BTN113},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/CastrignanoDACMDLMMPPRRBP08.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/nar/CastrignanoRTMABP06,
author = {Tiziana Castrignan{\`{o}} and
Raffaella Rizzi and
Ivano Giuseppe Talamo and
Paolo D'Onorio De Meo and
Anna Anselmo and
Paola Bonizzoni and
Graziano Pesole},
title = {{ASPIC:} a web resource for alternative splicing prediction and transcript
isoforms characterization},
journal = {Nucleic Acids Res.},
volume = {34},
number = {Web-Server-Issue},
pages = {440--443},
year = {2006},
url = {https://doi.org/10.1093/nar/gkl324},
doi = {10.1093/NAR/GKL324},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/CastrignanoRTMABP06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/BonizzoniRP05,
author = {Paola Bonizzoni and
Raffaella Rizzi and
Graziano Pesole},
title = {{ASPIC:} a novel method to predict the exon-intron structure of a
gene that is optimally compatible to a set of transcript sequences},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {244},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-244},
doi = {10.1186/1471-2105-6-244},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/BonizzoniRP05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/wabi/BonizzoniPR03,
author = {Paola Bonizzoni and
Graziano Pesole and
Raffaella Rizzi},
editor = {Gary Benson and
Roderic D. M. Page},
title = {A Method to Detect Gene Structure and Alternative Splice Sites by
Agreeing ESTs to a Genomic Sequence},
booktitle = {Algorithms in Bioinformatics, Third International Workshop, {WABI}
2003, Budapest, Hungary, September 15-20, 2003, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {2812},
pages = {63--77},
publisher = {Springer},
year = {2003},
url = {https://doi.org/10.1007/978-3-540-39763-2\_6},
doi = {10.1007/978-3-540-39763-2\_6},
timestamp = {Mon, 26 Jun 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/wabi/BonizzoniPR03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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