Showing 50 publications by Philippe Rocca-Serra
InChI isotopologue and isotopomer specifications
Moseley HNB, Rocca-Serra P, Salek RM, Arita M & Schymanski EL (2024), Journal of Cheminformatics, 16(1)
The Translational Data Catalog - discoverable biomedical datasets
Welter D, Rocca-Serra P, Grouès V, Sallam N, Ancien F et al. (2023), Scientific Data, 10
The Translational Data Catalog - discoverable biomedical datasets.
Welter D, Rocca-Serra P, Grouès V, Sallam N, Ancien F et al. (2023), Scientific data, 10(1), 470
FAIR data management: what does it mean for drug discovery?
Gadiya Y, Ioannidis V, Henderson D, Gribbon P, Rocca-Serra P et al. (2023), Frontiers in Drug Discovery, 3, 1226727
The FAIR Cookbook - the essential resource for and by FAIR doers
Rocca-Serra P, Gu W, Ioannidis V, Abbassi-Daloii T, Capella-Gutierrez S et al. (2023), Scientific Data, 10
BibTeX
@article{thefaircookbook-2023/5,
title={The FAIR Cookbook - the essential resource for and by FAIR doers},
author={Rocca-Serra P, Gu W, Ioannidis V, Abbassi-Daloii T, Capella-Gutierrez S et al.},
journal={Scientific Data},
volume={10},
number={292},
publisher={Springer Nature},
year = "2023"
}
FAIR in action - a flexible framework to guide FAIRification
Welter D, Juty N, Rocca-Serra P, Xu F, Henderson D et al. (2023), Scientific Data, 10(1)
The FAIR Cookbook - the essential resource for and by FAIR doers.
Rocca-Serra P, Gu W, Ioannidis V, Abbassi-Daloii T, Capella-Gutierrez S et al. (2023), Scientific data, 10(1), 292
FAIR in action - a flexible framework to guide FAIRification.
Welter D, Juty N, Rocca-Serra P, Xu F, Henderson D et al. (2023), Scientific data, 10(1), 291
Correction to: ELIXIR biovalidator for semantic validation of life science metadata.
Liyanage I, Burdett T, Droesbeke B, Erdos K, Fernandez R et al. (2023), Bioinformatics (Oxford, England), 39(1), btac835
BibTeX
@article{correctiontoeli-2023/1,
title={Correction to: ELIXIR biovalidator for semantic validation of life science metadata.},
author={Liyanage I, Burdett T, Droesbeke B, Erdos K, Fernandez R et al.},
journal={Bioinformatics (Oxford, England)},
volume={39},
number={ARTN btac835},
pages={btac835},
publisher={Oxford University Press (OUP)},
year = "2023"
}
Making Common Fund data more findable: catalyzing a data ecosystem
Charbonneau AL, Brady A, Czajkowski K, Aluvathingal J, Canchi S et al. (2022), GigaScience, 11
BibTeX
@article{makingcommonfun-2022/11,
title={Making Common Fund data more findable: catalyzing a data ecosystem},
author={Charbonneau AL, Brady A, Czajkowski K, Aluvathingal J, Canchi S et al.},
journal={GigaScience},
volume={11},
number={giac105},
publisher={Oxford University Press},
year = "2022"
}
Machine actionable metadata models
Batista D, Gonzalez-Beltran A, Sansone S-A & Rocca-Serra P (2022), Scientific Data, 9
ELIXIR biovalidator for semantic validation of life science metadata
Liyanage I, Burdett T, Droesbeke B, Erdos K, Fernandez R et al. (2022), Bioinformatics , 38(11), 3141-3142
BibTeX
@article{elixirbiovalida-2022/4,
title={ELIXIR biovalidator for semantic validation of life science metadata},
author={Liyanage I, Burdett T, Droesbeke B, Erdos K, Fernandez R et al.},
journal={Bioinformatics },
volume={38},
pages={3141-3142},
publisher={Oxford University Press},
year = "2022"
}
ELIXIR and toxicology: a community in development
Martens M, Stierum R, Schymanski E, Evelo C, Aalizadeh R et al. (2021), F1000Research, 10
ISA API: an open platform for interoperable life science experimental metadata
Johnson D, Batista D, Cochrane K, Davey RP, Etuk A et al. (2021), GigaScience, 10(9)
BibTeX
@article{isaapianopenpla-2021/9,
title={ISA API: an open platform for interoperable life science experimental metadata},
author={Johnson D, Batista D, Cochrane K, Davey RP, Etuk A et al.},
journal={GigaScience},
volume={10},
number={giab060},
publisher={Oxford University Press},
year = "2021"
}
Road to effective data curation for translational research.
Gu W, Hasan S, Rocca-Serra P & Satagopam VP (2021), Drug discovery today, 26(3), 626-630
Barely sufficient practices in scientific computing
Lee G, Bacon S, Bush I, Fortunato L, Gavaghan D et al. (2021), Patterns, 2(2)
Metabolomics: The Stethoscope for the Twenty-First Century.
Ashrafian H, Sounderajah V, Glen R, Ebbels T, Blaise BJ et al. (2021), Medical principles and practice : international journal of the Kuwait University, Health Science Centre, 30(4), 301-310
BibTeX
@article{metabolomicsthe-2021/1,
title={Metabolomics: The Stethoscope for the Twenty-First Century.},
author={Ashrafian H, Sounderajah V, Glen R, Ebbels T, Blaise BJ et al.},
journal={Medical principles and practice : international journal of the Kuwait University, Health Science Centre},
volume={30},
pages={301-310},
year = "2021"
}
ELIXIR and Toxicology: a community in development.
Martens M, Stierum R, Schymanski EL, Evelo CT, Aalizadeh R et al. (2021), F1000Research, 10, ELIXIR-1129
Making Common Fund data more findable: Catalyzing a Data Ecosystem
Charbonneau A, Brady A, Czajkowski K, Aluvathingal J, Canchi S et al. (2021)
An Open Ecosystem for Pervasive Use of Persistent Identifiers
Ananthakrishnan R, Chard K, D'Arcy M, Foster I, Kesselman C et al. (2020), 99-105
COPO: a metadata platform for brokering FAIR data in the life sciences
Shaw F, Etuk A, Minotto A, Gonzalez-Beltran A, Johnson D et al. (2020), F1000Research, 9, 495-495
Community standards for open cell migration data
Gonzalez-Beltran AN, Masuzzo P, Ampe C, Rocca-Serra P, Sansone S et al. (2020), GigaScience, 5(May 2020)
Enabling reusability of plant phenomic datasets with MIAPPE 1.1.
Papoutsoglou EA, Faria D, Arend D, Arnaud E, Athanasiadis IN et al. (2020), New Phytologist
Semantic concept schema of the linear mixed model of experimental observations
Ćwiek-Kupczyńska H, Filipiak K, Markiewicz A, Rocca-Serra P, Gonzalez-Beltran AN et al. (2020), Scientific Data, 7(1)
BibTeX
@article{semanticconcept-2020/2,
title={Semantic concept schema of the linear mixed model of experimental observations},
author={Ćwiek-Kupczyńska H, Filipiak K, Markiewicz A, Rocca-Serra P, Gonzalez-Beltran AN et al.},
journal={Scientific Data},
volume={7},
number={70},
publisher={Nature Research },
year = "2020"
}
The Data Tags Suite (DATS) model for discovering data access and use requirements
Alter G, Gonzalez-Beltran A, Ohno-Machado L & Rocca-Serra P (2020), GigaScience, 9(2)
BibTeX
@article{thedatatagssuit-2020/2,
title={The Data Tags Suite (DATS) model for discovering data access and use requirements},
author={Alter G, Gonzalez-Beltran A, Ohno-Machado L & Rocca-Serra P},
journal={GigaScience},
volume={9},
number={giz165},
publisher={Oxford University Press},
year = "2020"
}
Helping the Consumers and Producers of Standards, Repositories and Policies to Enable FAIR Data
McQuilton P, Batista D, Beyan O, Granell R, Coles S et al. (2020), Data Intelligence, 2(1-2), 151-157
BibTeX
@article{helpingtheconsu-2020/1,
title={Helping the Consumers and Producers of Standards, Repositories and Policies to Enable FAIR Data},
author={McQuilton P, Batista D, Beyan O, Granell R, Coles S et al.},
journal={Data Intelligence},
volume={2},
pages={151-157},
publisher={MIT Press},
year = "2020"
}
FAIR Principles: Interpretations and Implementation Considerations
Jacobsen A, de Miranda Azevedo R, Juty N, Batista D, Coles S et al. (2020), Data Intelligence, 2(1-2), 10-29
Use cases, best practice and reporting standards for metabolomics in regulatory toxicology
Viant MR, Ebbels TMD, Beger RD, Ekman DR, Epps DJT et al. (2019), Nature Communications, 10(1)
BibTeX
@article{usecasesbestpra-2019/12,
title={Use cases, best practice and reporting standards for metabolomics in regulatory toxicology},
author={Viant MR, Ebbels TMD, Beger RD, Ekman DR, Epps DJT et al.},
journal={Nature Communications},
volume={10},
number={3041},
publisher={Springer Science and Business Media LLC},
year = "2019"
}
Experiment design driven FAIRification of omics data matrices, an exemplar
Rocca-Serra P & Sansone S (2019), Scientific Data, 6, 271
Evaluating FAIR maturity through a scalable, automated, community-governed framework
Dumontier M, Sansone S, Bonino Da Silva Santos LO, Prieto M, Batista D et al. (2019), Scientific Data, 6
BibTeX
@article{evaluatingfairm-2019/9,
title={Evaluating FAIR maturity through a scalable, automated, community-governed framework},
author={Dumontier M, Sansone S, Bonino Da Silva Santos LO, Prieto M, Batista D et al.},
journal={Scientific Data},
volume={6},
number={174},
publisher={Springer Nature},
year = "2019"
}
Author Correction: Evaluating FAIR maturity through a scalable, automated, community-governed framework.
Dumontier M, Sansone S, Bonino Da Silva Santos LO, Prieto M, Batista D et al. (2019), Scientific Data, 6
BibTeX
@article{authorcorrectio-2019/9,
title={Author Correction: Evaluating FAIR maturity through a scalable, automated, community-governed framework.},
author={Dumontier M, Sansone S, Bonino Da Silva Santos LO, Prieto M, Batista D et al.},
journal={Scientific Data},
volume={6},
number={230},
publisher={Nature Research},
year = "2019"
}
Evaluating FAIR maturity through a scalable, automated, community-governed framework
Wilkinson M, Dumontier M, Sansone S, Da Silva Santos LOB, Prieto M et al. (2019), Scientific Data, 6
BibTeX
@article{evaluatingfairm-2019/9,
title={Evaluating FAIR maturity through a scalable, automated, community-governed framework},
author={Wilkinson M, Dumontier M, Sansone S, Da Silva Santos LOB, Prieto M et al.},
journal={Scientific Data},
volume={6},
number={174},
publisher={Nature Research},
year = "2019"
}
PlatformTM, a standards-based data custodianship platform for translational medicine research
Emam I, Elyasigomari V, Matthews A, Pavlidis S, Rocca-Serra P et al. (2019), Scientific Data, 6(1)
Evaluating FAIR Maturity Through a Scalable, Automated, Community-Governed Framework
Wilkinson M, Dumontier M, Sansone S-A, da Silva Santos LOB, Prieto M et al. (2019)
A data citation roadmap for scholarly data repositories
Fenner M, Crosas M, Grethe JS, Kennedy D, Hermjakob H et al. (2019), Scientific Data, 6(1)
FAIRsharing as a community approach to standards, repositories and policies
Sansone S, McQuilton P, Rocca-Serra P, Gonzalez-Beltran A, Izzo M et al. (2019), Nature Biotechnology, 37(4), 358-367
BibTeX
@article{fairsharingasac-2019/4,
title={FAIRsharing as a community approach to standards, repositories and policies},
author={Sansone S, McQuilton P, Rocca-Serra P, Gonzalez-Beltran A, Izzo M et al.},
journal={Nature Biotechnology},
volume={37},
pages={358-367},
publisher={Springer Nature},
year = "2019"
}
mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics.
Hoffmann N, Rein J, Sachsenberg T, Hartler J, Haug K et al. (2019), Analytical chemistry, 91(5), 3302-3310
Addendum: The FAIR Guiding Principles for scientific data management and stewardship.
Wilkinson MD, Dumontier M, Jan Aalbersberg I, Appleton G, Axton M et al. (2019), Scientific data, 6(1), 6-6
Interoperable and scalable data analysis with microservices: applications in metabolomics
Emami Khoonsari P, Moreno P, Bergmann S, Burman J, Capuccini M et al. (2019), Bioinformatics, 35(9), 3752-3760
BibTeX
@article{interoperablean-2019/3,
title={Interoperable and scalable data analysis with microservices: applications in metabolomics},
author={Emami Khoonsari P, Moreno P, Bergmann S, Burman J, Capuccini M et al.},
journal={Bioinformatics},
volume={35},
pages={3752-3760},
publisher={Oxford University Press},
year = "2019"
}
PhenoMeNal: processing and analysis of metabolomics data in the cloud.
Peters K, Bradbury J, Bergmann S, Capuccini M, Cascante M et al. (2019), GigaScience, 8(2)
The FAIR Funder pilot programme to make it easy for funders to require and for grantees to produce FAIR Data
Wittenburg P, Sustkova HP, Montesanti A, Bloemers SM, de Waard SH et al. (2019)
COPO: a metadata platform for brokering FAIR data in the life sciences
Etuk A, Shaw F, Gonzalez-Beltran A, Johnson D, Laporte M-A et al. (2019)
A computational framework for complex disease stratification from multiple large-scale datasets.
De Meulder B, Lefaudeux D, Bansal AT, Mazein A, Chaiboonchoe A et al. (2018), BMC Systems Biology, 12(60)
BibTeX
@article{acomputationalf-2018/5,
title={A computational framework for complex disease stratification from multiple large-scale datasets.},
author={De Meulder B, Lefaudeux D, Bansal AT, Mazein A, Chaiboonchoe A et al.},
journal={BMC Systems Biology},
volume={12},
publisher={BioMed Central},
year = "2018"
}
nmrML: A Community Supported Open Data Standard for the Description, Storage, and Exchange of NMR Data.
Schober D, Jacob D, Wilson M, Cruz JA, Marcu A et al. (2018), Analytical chemistry, 90(1), 649-656
DataMed - an open source discovery index for finding biomedical datasets
Chen X, Gururaj AE, Ozyurt B, Liu R, Soysal E et al. (2018), Journal of the American Medical Informatics Association, 25(3), 300-308
BibTeX
@article{datamedanopenso-2018/1,
title={DataMed - an open source discovery index for finding biomedical datasets},
author={Chen X, Gururaj AE, Ozyurt B, Liu R, Soysal E et al.},
journal={Journal of the American Medical Informatics Association},
volume={25},
pages={300-308},
publisher={Oxford University Press},
year = "2018"
}
FAIRsharing, a cohesive community approach to the growth in standards, repositories and policies
Sansone S-A, McQuilton PETER, Rocca-Serra PHILIPPE, Gonzalez-Beltran ALEJANDRA, Izzo MASSIMILIANO et al. (2018), NATURE BIOTECHNOLOGY(4)
BibTeX
@article{fairsharingacoh-2018/1,
title={FAIRsharing, a cohesive community approach to the growth in standards, repositories and policies},
author={Sansone S-A, McQuilton PETER, Rocca-Serra PHILIPPE, Gonzalez-Beltran ALEJANDRA, Izzo MASSIMILIANO et al.},
journal={NATURE BIOTECHNOLOGY},
publisher={Cold Spring Harbor Laboratory},
year = "2018"
}
Galaxy-Kubernetes integration: scaling bioinformatics workflows in the cloud
Moreno P, Pireddu L, Roger P, Goonasekera N, Afgan E et al. (2018)
Data discovery with DATS: exemplar adoptions and lessons learned
Gonzalez-Beltran A, Campbell J, Dunn P, Guijarro D, Ionescu S et al. (2017), Journal of the American Medical Informatics Association, 25(1), 13-16
BibTeX
@article{datadiscoverywi-2017/12,
title={Data discovery with DATS: exemplar adoptions and lessons learned},
author={Gonzalez-Beltran A, Campbell J, Dunn P, Guijarro D, Ionescu S et al.},
journal={Journal of the American Medical Informatics Association},
volume={25},
pages={13-16},
publisher={Oxford University Press},
year = "2017"
}