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ORCIDBibTeX records: Manuela Helmer-Citterich
@article{DBLP:journals/nar/VaradiAABCDNNPT22,
author = {Mihaly Varadi and
Stephen Anyango and
David R. Armstrong and
John M. Berrisford and
Preeti Choudhary and
Mandar S. Deshpande and
Nurul Nadzirin and
Sreenath Nair and
Luk{\'{a}}s Pravda and
Ahsan Tanweer and
Bissan Al{-}Lazikani and
Claudia Andreini and
Geoffrey J. Barton and
David Bednar and
Karel Berka and
Tom L. Blundell and
Kelly Brock and
Jos{\'{e}} Mar{\'{\i}}a Carazo and
Jir{\'{\i}} Damborsk{\'{y}} and
Alessia David and
Sucharita Dey and
Roland L. Dunbrack Jr. and
Juan Fern{\'{a}}ndez{-}Recio and
Franca Fraternali and
Toby J. Gibson and
Manuela Helmer{-}Citterich and
David Hoksza and
Thomas A. Hopf and
David Jakubec and
Natarajan Kannan and
Radoslav Kriv{\'{a}}k and
Manjeet Kumar and
Emmanuel D. Levy and
Nir London and
Jos{\'{e}} Ram{\'{o}}n Mac{\'{\i}}as and
Mallur Srivatsan Madhusudhan and
Debora S. Marks and
Lennart Martens and
Stuart A McGowan and
Jake E. McGreig and
Vivek Modi and
R. Gonzalo Parra and
Gerardo Pepe and
Damiano Piovesan and
Jaime Prilusky and
Valeria Putignano and
Leandro G. Radusky and
Pathmanaban Ramasamy and
Atilio O. Rausch and
Nathalie Reuter and
Luis A. Rodriguez and
Nathan J. Rollins and
Antonio Rosato and
Pawel Rubach and
Luis Serrano and
Gulzar Singh and
Petr Skoda and
Carlos Oscar S{\'{a}}nchez Sorzano and
Jan Stourac and
Joanna I. Sulkowska and
Radka Svobodov{\'{a}} Varekov{\'{a}} and
Natalia Tichshenko and
Silvio C. E. Tosatto and
Wim F. Vranken and
Mark N. Wass and
Dandan Xue and
Daniel Zaidman and
Janet M. Thornton and
Michael J. E. Sternberg and
Christine A. Orengo and
Sameer Velankar},
title = {PDBe-KB: collaboratively defining the biological context of structural
data},
journal = {Nucleic Acids Res.},
volume = {50},
number = {{D1}},
pages = {534--542},
year = {2022},
url = {https://doi.org/10.1093/nar/gkab988},
doi = {10.1093/NAR/GKAB988},
timestamp = {Sun, 12 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/VaradiAABCDNNPT22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GuarracinoPBAPS21,
author = {Andrea Guarracino and
Gerardo Pepe and
Francesco Ballesio and
Marta Adinolfi and
Marco Pietrosanto and
Elisa Sangiovanni and
Ilio Vitale and
Gabriele Ausiello and
Manuela Helmer{-}Citterich},
title = {{BRIO:} a web server for {RNA} sequence and structure motif scan},
journal = {Nucleic Acids Res.},
volume = {49},
number = {Webserver-Issue},
pages = {67--71},
year = {2021},
url = {https://doi.org/10.1093/nar/gkab400},
doi = {10.1093/NAR/GKAB400},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GuarracinoPBAPS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/VaradiBDNGAPAAB20,
author = {Mihaly Varadi and
John M. Berrisford and
Mandar S. Deshpande and
Sreenath Nair and
Aleksandras Gutmanas and
David R. Armstrong and
Luk{\'{a}}s Pravda and
Bissan Al{-}Lazikani and
Stephen Anyango and
Geoffrey J. Barton and
Karel Berka and
Tom L. Blundell and
Neera Borkakoti and
Jose M. Dana and
Sayoni Das and
Sucharita Dey and
Patrizio Di Micco and
Franca Fraternali and
Toby J. Gibson and
Manuela Helmer{-}Citterich and
David Hoksza and
Liang{-}Chin Huang and
Rishabh Jain and
Harry Jubb and
Christos C. Kannas and
Natarajan Kannan and
Jaroslav Koca and
Radoslav Kriv{\'{a}}k and
Manjeet Kumar and
Emmanuel D. Levy and
F{\'{a}}bio Madeira and
M. S. Madhusudhan and
Henry J. Martell and
Stuart A. MacGowan and
Jake E. McGreig and
Saqib Mir and
Abhik Mukhopadhyay and
Luca Parca and
Typhaine Paysan{-}Lafosse and
Leandro G. Radusky and
Ant{\'{o}}nio J. M. Ribeiro and
Luis Serrano and
Ian Sillitoe and
Gulzar Singh and
Petr Skoda and
Radka Svobodov{\'{a}} Varekov{\'{a}} and
Jonathan D. Tyzack and
Alfonso Valencia and
Eloy D. Villasclaras{-}Fern{\'{a}}ndez and
Wim F. Vranken and
Mark N. Wass and
Janet M. Thornton and
Michael J. E. Sternberg and
Christine A. Orengo and
Sameer Velankar},
title = {PDBe-KB: a community-driven resource for structural and functional
annotations},
journal = {Nucleic Acids Res.},
volume = {48},
number = {Database-Issue},
pages = {D344--D353},
year = {2020},
url = {https://doi.org/10.1093/nar/gkz853},
doi = {10.1093/NAR/GKZ853},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/VaradiBDNGAPAAB20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ParcaACPTPAH19,
author = {Luca Parca and
Bruno Ariano and
Andrea Cabibbo and
Marco Paoletti and
Annalaura Tamburrini and
Antonio Palmeri and
Gabriele Ausiello and
Manuela Helmer{-}Citterich},
title = {Kinome-wide identification of phosphorylation networks in eukaryotic
proteomes},
journal = {Bioinform.},
volume = {35},
number = {3},
pages = {372--379},
year = {2019},
url = {https://doi.org/10.1093/bioinformatics/bty545},
doi = {10.1093/BIOINFORMATICS/BTY545},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/ParcaACPTPAH19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/PietrosantoACAF18,
author = {Marco Pietrosanto and
Marta Adinolfi and
Riccardo Casula and
Gabriele Ausiello and
Fabrizio Ferr{\`{e}} and
Manuela Helmer{-}Citterich},
title = {{BEAM} web server: a tool for structural {RNA} motif discovery},
journal = {Bioinform.},
volume = {34},
number = {6},
pages = {1058--1060},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/btx704},
doi = {10.1093/BIOINFORMATICS/BTX704},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/PietrosantoACAF18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/FerreCH16,
author = {Fabrizio Ferr{\`{e}} and
Alessio Colantoni and
Manuela Helmer{-}Citterich},
title = {Revealing protein-lncRNA interaction},
journal = {Briefings Bioinform.},
volume = {17},
number = {1},
pages = {106--116},
year = {2016},
url = {https://doi.org/10.1093/bib/bbv031},
doi = {10.1093/BIB/BBV031},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/FerreCH16.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}
}
@article{DBLP:journals/bmcbi/FacchianoABGMMP15,
author = {Angelo M. Facchiano and
Claudia Angelini and
Roberta Bosotti and
Alessandro Guffanti and
Anna Marabotti and
Roberto Marangoni and
Stefano Pascarella and
Paolo Romano and
Andreas Zanzoni and
Manuela Helmer{-}Citterich},
title = {Preface: BITS2014, the annual meeting of the Italian Society of Bioinformatics},
journal = {{BMC} Bioinform.},
volume = {16},
number = {{S-9}},
pages = {S1},
year = {2015},
url = {https://doi.org/10.1186/1471-2105-16-S9-S1},
doi = {10.1186/1471-2105-16-S9-S1},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/FacchianoABGMMP15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MatteiPFH15,
author = {Eugenio Mattei and
Marco Pietrosanto and
Fabrizio Ferr{\`{e}} and
Manuela Helmer{-}Citterich},
title = {Web-Beagle: a web server for the alignment of {RNA} secondary structures},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Webserver-Issue},
pages = {W493--W497},
year = {2015},
url = {https://doi.org/10.1093/nar/gkv489},
doi = {10.1093/NAR/GKV489},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/MatteiPFH15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodb/BianchiCCAFH13,
author = {Valerio Bianchi and
Alessio Colantoni and
Alberto Calderone and
Gabriele Ausiello and
Fabrizio Ferr{\`{e}} and
Manuela Helmer{-}Citterich},
title = {{DBATE:} database of alternative transcripts expression},
journal = {Database J. Biol. Databases Curation},
volume = {2013},
year = {2013},
url = {https://doi.org/10.1093/database/bat050},
doi = {10.1093/DATABASE/BAT050},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/biodb/BianchiCCAFH13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/GissiRFGPFH13,
author = {Carmela Gissi and
Paolo Romano and
Alfredo Ferro and
Rosalba Giugno and
Alfredo Pulvirenti and
Angelo M. Facchiano and
Manuela Helmer{-}Citterich},
title = {Bioinformatics in Italy: {BITS} 2012, the ninth annual meeting of
the Italian Society of Bioinformatics},
journal = {{BMC} Bioinform.},
volume = {14},
number = {{S-7}},
pages = {S1},
year = {2013},
url = {https://doi.org/10.1186/1471-2105-14-S7-S1},
doi = {10.1186/1471-2105-14-S7-S1},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/GissiRFGPFH13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ParcaFAH13,
author = {Luca Parca and
Fabrizio Ferr{\`{e}} and
Gabriele Ausiello and
Manuela Helmer{-}Citterich},
title = {Nucleos: a web server for the identification of nucleotide-binding
sites in protein structures},
journal = {Nucleic Acids Res.},
volume = {41},
number = {Webserver-Issue},
pages = {281--285},
year = {2013},
url = {https://doi.org/10.1093/nar/gkt390},
doi = {10.1093/NAR/GKT390},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ParcaFAH13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BianchiMFHA13,
author = {Valerio Bianchi and
Iolanda Mangone and
Fabrizio Ferr{\`{e}} and
Manuela Helmer{-}Citterich and
Gabriele Ausiello},
title = {webPDBinder: a server for the identification of ligand binding sites
on protein structures},
journal = {Nucleic Acids Res.},
volume = {41},
number = {Webserver-Issue},
pages = {308--313},
year = {2013},
url = {https://doi.org/10.1093/nar/gkt457},
doi = {10.1093/NAR/GKT457},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/BianchiMFHA13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/RomanoH12,
author = {Paolo Romano and
Manuela Helmer{-}Citterich},
title = {Bioinformatics in Italy: BITS2011, the Eighth Annual Meeting of the
Italian Society of Bioinformatics},
journal = {{BMC} Bioinform.},
volume = {13},
number = {{S-4}},
pages = {I1},
year = {2012},
url = {https://doi.org/10.1186/1471-2105-13-S4-I1},
doi = {10.1186/1471-2105-13-S4-I1},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/RomanoH12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/BianchiGHA12,
author = {Valerio Bianchi and
Pier Federico Gherardini and
Manuela Helmer{-}Citterich and
Gabriele Ausiello},
title = {Identification of binding pockets in protein structures using a knowledge-based
potential derived from local structural similarities},
journal = {{BMC} Bioinform.},
volume = {13},
number = {{S-4}},
pages = {S17},
year = {2012},
url = {https://doi.org/10.1186/1471-2105-13-S4-S17},
doi = {10.1186/1471-2105-13-S4-S17},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/BianchiGHA12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/FioravantiHN12,
author = {Fabio Fioravanti and
Manuela Helmer{-}Citterich and
Enrico Nardelli},
title = {Modeling gene regulatory network motifs using statecharts},
journal = {{BMC} Bioinform.},
volume = {13},
number = {{S-4}},
pages = {S20},
year = {2012},
url = {https://doi.org/10.1186/1471-2105-13-S4-S20},
doi = {10.1186/1471-2105-13-S4-S20},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/FioravantiHN12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ZanzoniCDGTHV11,
author = {Andreas Zanzoni and
Daniel Carbajo and
Francesca Diella and
Pier Federico Gherardini and
Anna Tramontano and
Manuela Helmer{-}Citterich and
Allegra Via},
title = {Phospho3D 2.0: an enhanced database of three-dimensional structures
of phosphorylation sites},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Database-Issue},
pages = {268--271},
year = {2011},
url = {https://doi.org/10.1093/nar/gkq936},
doi = {10.1093/NAR/GKQ936},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/nar/ZanzoniCDGTHV11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ParcaMGAH11,
author = {Luca Parca and
Iolanda Mangone and
Pier Federico Gherardini and
Gabriele Ausiello and
Manuela Helmer{-}Citterich},
title = {Phosfinder: a web server for the identification of phosphate-binding
sites on protein structures},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Web-Server-Issue},
pages = {278--282},
year = {2011},
url = {https://doi.org/10.1093/nar/gkr389},
doi = {10.1093/NAR/GKR389},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ParcaMGAH11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GouldDVPGCMSBCSDHWBHPRTAHLG10,
author = {Cathryn M. Gould and
Francesca Diella and
Allegra Via and
P{\aa}l Puntervoll and
Christine Gem{\"{u}}nd and
Sophie Chabanis{-}Davidson and
Sushama Michael and
Ahmed Sayadi and
Jan Christian Bryne and
Claudia Chica and
Markus Seiler and
Norman E. Davey and
Niall J. Haslam and
Robert J. Weatheritt and
Aidan Budd and
Tim Hughes and
Jakub Pas and
Leszek Rychlewski and
Gilles Trav{\'{e}} and
Rein Aasland and
Manuela Helmer{-}Citterich and
Rune Linding and
Toby J. Gibson},
title = {{ELM:} the status of the 2010 eukaryotic linear motif resource},
journal = {Nucleic Acids Res.},
volume = {38},
number = {Database-Issue},
pages = {167--180},
year = {2010},
url = {https://doi.org/10.1093/nar/gkp1016},
doi = {10.1093/NAR/GKP1016},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GouldDVPGCMSBCSDHWBHPRTAHLG10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/AusielloGGIH09,
author = {Gabriele Ausiello and
Pier Federico Gherardini and
Elena Gatti and
Ottaviano Incani and
Manuela Helmer{-}Citterich},
title = {Structural motifs recurring in different folds recognize the same
ligand fragments},
journal = {{BMC} Bioinform.},
volume = {10},
year = {2009},
url = {https://doi.org/10.1186/1471-2105-10-182},
doi = {10.1186/1471-2105-10-182},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/AusielloGGIH09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ViaGGGH09,
author = {Allegra Via and
Cathryn M. Gould and
Christine Gem{\"{u}}nd and
Toby J. Gibson and
Manuela Helmer{-}Citterich},
title = {A structure filter for the Eukaryotic Linear Motif Resource},
journal = {{BMC} Bioinform.},
volume = {10},
pages = {351},
year = {2009},
url = {https://doi.org/10.1186/1471-2105-10-351},
doi = {10.1186/1471-2105-10-351},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ViaGGGH09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/AusielloGMTVH08,
author = {Gabriele Ausiello and
Pier Federico Gherardini and
Paolo Marcatili and
Anna Tramontano and
Allegra Via and
Manuela Helmer{-}Citterich},
title = {FunClust: a web server for the identification of structural motifs
in a set of non-homologous protein structures},
journal = {{BMC} Bioinform.},
volume = {9},
number = {{S-2}},
year = {2008},
url = {https://doi.org/10.1186/1471-2105-9-S2-S2},
doi = {10.1186/1471-2105-9-S2-S2},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/AusielloGMTVH08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/PesoleH08,
author = {Graziano Pesole and
Manuela Helmer{-}Citterich},
title = {Bioinformatics in Italy: BITS2007, the fourth annual meeting of the
Italian Society of Bioinformatics},
journal = {{BMC} Bioinform.},
volume = {9},
number = {{S-2}},
year = {2008},
url = {https://doi.org/10.1186/1471-2105-9-S2-S1},
doi = {10.1186/1471-2105-9-S2-S1},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/PesoleH08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/AusielloPVH07,
author = {Gabriele Ausiello and
Daniele Peluso and
Allegra Via and
Manuela Helmer{-}Citterich},
title = {Local comparison of protein structures highlights cases of convergent
evolution in analogous functional sites},
journal = {{BMC} Bioinform.},
volume = {8},
number = {{S-1}},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-S1-S24},
doi = {10.1186/1471-2105-8-S1-S24},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/AusielloPVH07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/CasadioHP07,
author = {Rita Casadio and
Manuela Helmer{-}Citterich and
Graziano Pesole},
title = {Bioinformatics in Italy: BITS2006, the third annual meeting of the
Italian Society of Bioinformatics},
journal = {{BMC} Bioinform.},
volume = {8},
number = {{S-1}},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-S1-S1},
doi = {10.1186/1471-2105-8-S1-S1},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/CasadioHP07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ViaGFATH07,
author = {Allegra Via and
Pier Federico Gherardini and
Enrico Ferraro and
Gabriele Ausiello and
Gianpaolo Scalia Tomba and
Manuela Helmer{-}Citterich},
title = {False occurrences of functional motifs in protein sequences highlight
evolutionary constraints},
journal = {{BMC} Bioinform.},
volume = {8},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-68},
doi = {10.1186/1471-2105-8-68},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ViaGFATH07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ZanzoniAVGH07,
author = {Andreas Zanzoni and
Gabriele Ausiello and
Allegra Via and
Pier Federico Gherardini and
Manuela Helmer{-}Citterich},
title = {Phospho3D: a database of three-dimensional structures of protein phosphorylation
sites},
journal = {Nucleic Acids Res.},
volume = {35},
number = {Database-Issue},
pages = {229--231},
year = {2007},
url = {https://doi.org/10.1093/nar/gkl922},
doi = {10.1093/NAR/GKL922},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ZanzoniAVGH07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ViaPGRCAH07,
author = {Allegra Via and
Daniele Peluso and
Pier Federico Gherardini and
Emanuele de Rinaldis and
Teresa Colombo and
Gabriele Ausiello and
Manuela Helmer{-}Citterich},
title = {3dLOGO: a web server for the identification, analysis and use of conserved
protein substructures},
journal = {Nucleic Acids Res.},
volume = {35},
number = {Web-Server-Issue},
pages = {416--419},
year = {2007},
url = {https://doi.org/10.1093/nar/gkm228},
doi = {10.1093/NAR/GKM228},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ViaPGRCAH07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/FerraroPVAH07,
author = {Enrico Ferraro and
Daniele Peluso and
Allegra Via and
Gabriele Ausiello and
Manuela Helmer{-}Citterich},
title = {SH3-Hunter: discovery of {SH3} domain interaction sites in proteins},
journal = {Nucleic Acids Res.},
volume = {35},
number = {Web-Server-Issue},
pages = {451--454},
year = {2007},
url = {https://doi.org/10.1093/nar/gkm296},
doi = {10.1093/NAR/GKM296},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/FerraroPVAH07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/FerraroVAH06,
author = {Enrico Ferraro and
Allegra Via and
Gabriele Ausiello and
Manuela Helmer{-}Citterich},
title = {A novel structure-based encoding for machine-learning applied to the
inference of {SH3} domain specificity},
journal = {Bioinform.},
volume = {22},
number = {19},
pages = {2333--2339},
year = {2006},
url = {https://doi.org/10.1093/bioinformatics/btl403},
doi = {10.1093/BIOINFORMATICS/BTL403},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/FerraroVAH06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ViaZH05,
author = {Allegra Via and
Andreas Zanzoni and
Manuela Helmer{-}Citterich},
title = {Seq2Struct: a resource for establishing sequence-structure links},
journal = {Bioinform.},
volume = {21},
number = {4},
pages = {551--553},
year = {2005},
url = {https://doi.org/10.1093/bioinformatics/bti049},
doi = {10.1093/BIOINFORMATICS/BTI049},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/ViaZH05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/AusielloVH05,
author = {Gabriele Ausiello and
Allegra Via and
Manuela Helmer{-}Citterich},
title = {Query3d: a new method for high-throughput analysis of functional residues
in protein structures},
journal = {{BMC} Bioinform.},
volume = {6},
number = {{S-4}},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-S4-S5},
doi = {10.1186/1471-2105-6-S4-S5},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/AusielloVH05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/FerraroVAH05,
author = {Enrico Ferraro and
Allegra Via and
Gabriele Ausiello and
Manuela Helmer{-}Citterich},
title = {A neural strategy for the inference of {SH3} domain-peptide interaction
specificity},
journal = {{BMC} Bioinform.},
volume = {6},
number = {{S-4}},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-S4-S13},
doi = {10.1186/1471-2105-6-S4-S13},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/FerraroVAH05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/FerreAZH05,
author = {Fabrizio Ferr{\`{e}} and
Gabriele Ausiello and
Andreas Zanzoni and
Manuela Helmer{-}Citterich},
title = {Functional annotation by identification of local surface similarities:
a novel tool for structural genomics},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {194},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-194},
doi = {10.1186/1471-2105-6-194},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/FerreAZH05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/Helmer-CitterichCGMMPVS05,
author = {Manuela Helmer{-}Citterich and
Rita Casadio and
Alessandro Guffanti and
Giancarlo Mauri and
Luciano Milanesi and
Graziano Pesole and
Giorgio Valle and
Cecilia Saccone},
title = {Overview of BITS2005, the Second Annual Meeting of the Italian Bioinformatics
Society},
journal = {{BMC} Bioinform.},
volume = {6},
number = {{S-4}},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-S4-S1},
doi = {10.1186/1471-2105-6-S4-S1},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/Helmer-CitterichCGMMPVS05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/AusielloZPVH05,
author = {Gabriele Ausiello and
Andreas Zanzoni and
Daniele Peluso and
Allegra Via and
Manuela Helmer{-}Citterich},
title = {pdbFun: mass selection and fast comparison of annotated {PDB} residues},
journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {133--137},
year = {2005},
url = {https://doi.org/10.1093/nar/gki499},
doi = {10.1093/NAR/GKI499},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/AusielloZPVH05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ViaH04,
author = {Allegra Via and
Manuela Helmer{-}Citterich},
title = {A structural study for the optimisation of functional motifs encoded
in protein sequences},
journal = {{BMC} Bioinform.},
volume = {5},
pages = {50},
year = {2004},
url = {https://doi.org/10.1186/1471-2105-5-50},
doi = {10.1186/1471-2105-5-50},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ViaH04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/FerreAZH04,
author = {Fabrizio Ferr{\`{e}} and
Gabriele Ausiello and
Andreas Zanzoni and
Manuela Helmer{-}Citterich},
title = {{SURFACE:} a database of protein surface regions for functional annotation},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Database-Issue},
pages = {240--244},
year = {2004},
url = {https://doi.org/10.1093/nar/gkh054},
doi = {10.1093/NAR/GKH054},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/FerreAZH04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/PuntervollLGCMCMABCFMVCDSWRMGLBRKHHAG03,
author = {P{\aa}l Puntervoll and
Rune Linding and
Christine Gem{\"{u}}nd and
Sophie Chabanis{-}Davidson and
Morten Mattingsdal and
Scott Cameron and
David M. A. Martin and
Gabriele Ausiello and
Barbara Brannetti and
Anna Costantini and
Fabrizio Ferr{\`{e}} and
Vincenza Maselli and
Allegra Via and
Gianni Cesareni and
Francesca Diella and
Giulio Superti{-}Furga and
Lucjan Stanislaw Wyrwicz and
Chenna Ramu and
Caroline McGuigan and
Rambabu Gudavalli and
Ivica Letunic and
Peer Bork and
Leszek Rychlewski and
Bernhard K{\"{u}}ster and
Manuela Helmer{-}Citterich and
William N. Hunter and
Rein Aasland and
Toby J. Gibson},
title = {{ELM} server: a new resource for investigating short functional sites
in modular eukaryotic proteins},
journal = {Nucleic Acids Res.},
volume = {31},
number = {13},
pages = {3625--3630},
year = {2003},
url = {https://doi.org/10.1093/nar/gkg545},
doi = {10.1093/NAR/GKG545},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/PuntervollLGCMCMABCFMVCDSWRMGLBRKHHAG03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BrannettiH03,
author = {Barbara Brannetti and
Manuela Helmer{-}Citterich},
title = {iSPOT: a web tool to infer the interaction specificity of families
of protein modules},
journal = {Nucleic Acids Res.},
volume = {31},
number = {13},
pages = {3709--3711},
year = {2003},
url = {https://doi.org/10.1093/nar/gkg592},
doi = {10.1093/NAR/GKG592},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/BrannettiH03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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