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BibTeX records: Marco Brandizi
@article{DBLP:journals/corr/abs-2505-17498,
author = {Marco Brandizi and
Carlos Bobed and
Luca Garulli and
Arn{\'{e}} de Klerk and
Keywan Hassani{-}Pak},
title = {Managing {FAIR} Knowledge Graphs as Polyglot Data End Points: {A}
Benchmark based on the rdf2pg Framework and Plant Biology Data},
journal = {CoRR},
volume = {abs/2505.17498},
year = {2025},
url = {https://doi.org/10.48550/arXiv.2505.17498},
doi = {10.48550/ARXIV.2505.17498},
eprinttype = {arXiv},
eprint = {2505.17498},
timestamp = {Thu, 26 Jun 2025 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2505-17498.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/BrandiziSRH18,
author = {Marco Brandizi and
Ajit Singh and
Christopher J. Rawlings and
Keywan Hassani{-}Pak},
title = {Towards FAIRer Biological Knowledge Networks Using a Hybrid Linked
Data and Graph Database Approach},
journal = {J. Integr. Bioinform.},
volume = {15},
number = {3},
year = {2018},
url = {https://doi.org/10.1515/jib-2018-0023},
doi = {10.1515/JIB-2018-0023},
timestamp = {Tue, 14 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/BrandiziSRH18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/BrandiziSH18,
author = {Marco Brandizi and
Ajit Singh and
Keywan Hassani{-}Pak},
editor = {Andra Waagmeester and
Christopher J. O. Baker and
Andrea Splendiani and
Oya Deniz Beyan and
M. Scott Marshall},
title = {Getting the best of Linked Data and Property Graphs: rdf2neo and the
KnetMiner use case},
booktitle = {Proceedings of the 11th International Conference Semantic Web Applications
and Tools for Life Sciences, {SWAT4LS} 2018, Antwerp, Belgium, December
3-6, 2018},
series = {{CEUR} Workshop Proceedings},
volume = {2275},
publisher = {CEUR-WS.org},
year = {2018},
url = {https://ceur-ws.org/Vol-2275/paper14.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:03 +0100},
biburl = {https://dblp.org/rec/conf/swat4ls/BrandiziSH18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/midm/BrandiziMBKRSKK17,
author = {Marco Brandizi and
Olga Melnichuk and
Raffael Bild and
Florian Kohlmayer and
Benedicto Rodriguez{-}Castro and
Helmut Spengler and
Klaus A. Kuhn and
Wolfgang Kuchinke and
Christian Ohmann and
Timo Mustonen and
Mikael Linden and
Tommi H. Nyr{\"{o}}nen and
Ilkka Lappalainen and
Alvis Brazma and
Ugis Sarkans},
title = {Orchestrating differential data access for translational research:
a pilot implementation},
journal = {{BMC} Medical Informatics Decis. Mak.},
volume = {17},
number = {1},
pages = {30:1--30:14},
year = {2017},
url = {https://doi.org/10.1186/s12911-017-0424-6},
doi = {10.1186/S12911-017-0424-6},
timestamp = {Sun, 06 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/midm/BrandiziMBKRSKK17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/KolesnikovHKMTWDKBBMPRTPPSB15,
author = {Nikolay Kolesnikov and
Emma Hastings and
Maria Keays and
Olga Melnichuk and
Y. Amy Tang and
Eleanor Williams and
Miroslaw Dylag and
Natalja Kurbatova and
Marco Brandizi and
Tony Burdett and
Karyn Megy and
Ekaterina Pilicheva and
Gabriella Rustici and
Andrew Tikhonov and
Helen E. Parkinson and
Robert Petryszak and
Ugis Sarkans and
Alvis Brazma},
title = {ArrayExpress update - simplifying data submissions},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Database-Issue},
pages = {1113--1116},
year = {2015},
url = {https://doi.org/10.1093/nar/gku1057},
doi = {10.1093/NAR/GKU1057},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/KolesnikovHKMTWDKBBMPRTPPSB15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/JuppMBBDGGGLRWMNPBJ14,
author = {Simon Jupp and
James Malone and
Jerven T. Bolleman and
Marco Brandizi and
Mark Davies and
Leyla J. Garc{\'{\i}}a and
Anna Gaulton and
Sebastien Gehant and
Camille Laibe and
Nicole Redaschi and
Sarala M. Wimalaratne and
Maria Jesus Martin and
Nicolas Le Nov{\`{e}}re and
Helen E. Parkinson and
Ewan Birney and
Andrew M. Jenkinson},
title = {The {EBI} {RDF} platform: linked open data for the life sciences},
journal = {Bioinform.},
volume = {30},
number = {9},
pages = {1338--1339},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btt765},
doi = {10.1093/BIOINFORMATICS/BTT765},
timestamp = {Wed, 21 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/JuppMBBDGGGLRWMNPBJ14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/FaulconbridgeBBGPVSBP14,
author = {Adam Faulconbridge and
Tony Burdett and
Marco Brandizi and
Mikhail Gostev and
Rui Pedro Pereira and
Drashtti Vasant and
Ugis Sarkans and
Alvis Brazma and
Helen E. Parkinson},
title = {Updates to BioSamples database at European Bioinformatics Institute},
journal = {Nucleic Acids Res.},
volume = {42},
number = {Database-Issue},
pages = {50--52},
year = {2014},
url = {https://doi.org/10.1093/nar/gkt1081},
doi = {10.1093/NAR/GKT1081},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/FaulconbridgeBBGPVSBP14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/RusticiKBBDEFHIKKMMMPPRSTTTWWBPS13,
author = {Gabriella Rustici and
Nikolay Kolesnikov and
Marco Brandizi and
Tony Burdett and
Miroslaw Dylag and
Ibrahim Emam and
Anna Farne and
Emma Hastings and
Jon C. Ison and
Maria Keays and
Natalja Kurbatova and
James Malone and
Roby Mani and
Annalisa Mupo and
Rui Pedro Pereira and
Ekaterina Pilicheva and
Johan Rung and
Anjan Sharma and
Y. Amy Tang and
Tobias Ternent and
Andrew Tikhonov and
Danielle Welter and
Eleanor Williams and
Alvis Brazma and
Helen E. Parkinson and
Ugis Sarkans},
title = {ArrayExpress update - trends in database growth and links to data
analysis tools},
journal = {Nucleic Acids Res.},
volume = {41},
number = {Database-Issue},
pages = {987--990},
year = {2013},
url = {https://doi.org/10.1093/nar/gks1174},
doi = {10.1093/NAR/GKS1174},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/RusticiKBBDEFHIKKMMMPPRSTTTWWBPS13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BrandiziKSR12,
author = {Marco Brandizi and
Natalja Kurbatova and
Ugis Sarkans and
Philippe Rocca{-}Serra},
title = {graph2tab, a library to convert experimental workflow graphs into
tabular formats},
journal = {Bioinform.},
volume = {28},
number = {12},
pages = {1665--1667},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/bts258},
doi = {10.1093/BIOINFORMATICS/BTS258},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BrandiziKSR12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/GostevFBFSBP12,
author = {Mikhail Gostev and
Adam Faulconbridge and
Marco Brandizi and
Julio Fernandez{-}Banet and
Ugis Sarkans and
Alvis Brazma and
Helen E. Parkinson},
title = {The BioSample Database (BioSD) at the European Bioinformatics Institute},
journal = {Nucleic Acids Res.},
volume = {40},
number = {Database-Issue},
pages = {64--70},
year = {2012},
url = {https://doi.org/10.1093/nar/gkr937},
doi = {10.1093/NAR/GKR937},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/GostevFBFSBP12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/SplendianiGACSB11,
author = {Andrea Splendiani and
Michaela G{\"{u}}ndel and
Jonathan M. Austyn and
Duccio Cavalieri and
Ciro Scognamiglio and
Marco Brandizi},
title = {Knowledge sharing and collaboration in translational research, and
the {DC-THERA} Directory},
journal = {Briefings Bioinform.},
volume = {12},
number = {6},
pages = {562--575},
year = {2011},
url = {https://doi.org/10.1093/bib/bbr051},
doi = {10.1093/BIB/BBR051},
timestamp = {Tue, 16 Dec 2025 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/SplendianiGACSB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ParkinsonSKABDEFHHKLMMPRSWABSB11,
author = {Helen E. Parkinson and
Ugis Sarkans and
Nikolay Kolesnikov and
Niran Abeygunawardena and
Tony Burdett and
Miroslaw Dylag and
Ibrahim Emam and
Anna Farne and
Emma Hastings and
Ele Holloway and
Natalja Kurbatova and
Margus Lukk and
James Malone and
Roby Mani and
Ekaterina Pilicheva and
Gabriella Rustici and
Anjan Sharma and
Eleanor Williams and
Tomasz Adamusiak and
Marco Brandizi and
Nataliya Sklyar and
Alvis Brazma},
title = {ArrayExpress update - an archive of microarray and high-throughput
sequencing-based functional genomics experiments},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Database-Issue},
pages = {1002--1004},
year = {2011},
url = {https://doi.org/10.1093/nar/gkq1040},
doi = {10.1093/NAR/GKQ1040},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ParkinsonSKABDEFHHKLMMPRSWABSB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/Rocca-SerraBMSTBFHHHNSTS10,
author = {Philippe Rocca{-}Serra and
Marco Brandizi and
Eamonn Maguire and
Nataliya Sklyar and
Chris F. Taylor and
Kimberly Begley and
Dawn Field and
Stephen C. Harris and
Winston Hide and
Oliver Hofmann and
Steffen Neumann and
Peter Sterk and
Weida Tong and
Susanna{-}Assunta Sansone},
title = {{ISA} software suite: supporting standards-compliant experimental
annotation and enabling curation at the community level},
journal = {Bioinform.},
volume = {26},
number = {18},
pages = {2354--2356},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btq415},
doi = {10.1093/BIOINFORMATICS/BTQ415},
timestamp = {Thu, 25 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/Rocca-SerraBMSTBFHHHNSTS10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ParkinsonKKRSABDEFHLMMPRRSWBABBCKKMNRSSZSB09,
author = {Helen E. Parkinson and
Misha Kapushesky and
Nikolay Kolesnikov and
Gabriella Rustici and
Mohammadreza Shojatalab and
Niran Abeygunawardena and
Hugo B{\'{e}}rub{\'{e}} and
Miroslaw Dylag and
Ibrahim Emam and
Anna Farne and
Ele Holloway and
Margus Lukk and
James Malone and
Roby Mani and
Ekaterina Pilicheva and
Tim F. Rayner and
Faisal Ibne Rezwan and
Anjan Sharma and
Eleanor Williams and
Xiangqun Zheng Bradley and
Tomasz Adamusiak and
Marco Brandizi and
Tony Burdett and
Richard Coulson and
Maria Krestyaninova and
Pavel Kurnosov and
Eamonn Maguire and
Sudeshna Guha Neogi and
Philippe Rocca{-}Serra and
Susanna{-}Assunta Sansone and
Nataliya Sklyar and
Mengyao Zhao and
Ugis Sarkans and
Alvis Brazma},
title = {ArrayExpress update - from an archive of functional genomics experiments
to the atlas of gene expression},
journal = {Nucleic Acids Res.},
volume = {37},
number = {Database-Issue},
pages = {868--872},
year = {2009},
url = {https://doi.org/10.1093/nar/gkn889},
doi = {10.1093/NAR/GKN889},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ParkinsonKKRSABDEFHLMMPRRSWBABBCKKMNRSSZSB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/BrandiziGSS09,
author = {Marco Brandizi and
Michaela G{\"{u}}ndel and
Ciro Scognamiglio and
Andrea Splendiani},
editor = {M. Scott Marshall and
Albert Burger and
Paolo Romano and
Adrian Paschke and
Andrea Splendiani},
title = {{DC-THERA} Directory, a Knowledge Management System for the support
of the European Dendritic Cell Immunology Community},
booktitle = {Proceedings of the Workshop on Semantic Web Applications and Tools
for Life Sciences, Amsterdam, The Netherlands, November 20, 2009},
series = {{CEUR} Workshop Proceedings},
volume = {559},
publisher = {CEUR-WS.org},
year = {2009},
url = {https://ceur-ws.org/Vol-559/Demo2.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:02 +0100},
biburl = {https://dblp.org/rec/conf/swat4ls/BrandiziGSS09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/swat4ls/GundelSBS08,
author = {Michaela G{\"{u}}ndel and
Ciro Scognamiglio and
Marco Brandizi and
Andrea Splendiani},
editor = {Albert Burger and
Adrian Paschke and
Paolo Romano and
Andrea Splendiani},
title = {The {DC-THERA} Directory: {A} Knowledge Management System to Support
Collaboration on Dendritic Cell and Immunology Research},
booktitle = {Proceedings of the Workshop on Semantic Web Applications and Tools
for Life Sciences {(} {SWAT4LS} {)} Edinburgh, United Kingdom, November
28, 2008},
series = {{CEUR} Workshop Proceedings},
volume = {435},
publisher = {CEUR-WS.org},
year = {2008},
url = {https://ceur-ws.org/Vol-435/poster06.pdf},
timestamp = {Fri, 10 Mar 2023 16:23:02 +0100},
biburl = {https://dblp.org/rec/conf/swat4ls/GundelSBS08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/SplendianiBEBPPMFMR07,
author = {Andrea Splendiani and
Marco Brandizi and
Gael Even and
Ottavio Beretta and
Norman Pavelka and
Mattia Pelizzola and
Manuel Mayhaus and
Maria Foti and
Giancarlo Mauri and
Paola Ricciardi{-}Castagnoli},
title = {The Genopolis Microarray Database},
journal = {{BMC} Bioinform.},
volume = {8},
number = {{S-1}},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-S1-S21},
doi = {10.1186/1471-2105-8-S1-S21},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/SplendianiBEBPPMFMR07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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