Publications by authors named "Marco Brandizi"

16Publications

Towards FAIRer Biological Knowledge Networks Using a Hybrid Linked Data and Graph Database Approach.

Authors:
Marco Brandizi Ajit Singh Christopher Rawlings Keywan Hassani-Pak

J Integr Bioinform 2018 Aug 7;15(3). Epub 2018 Aug 7.

Rothamsted Research, Computational and Analytical Sciences Department, Harpenden, AL5 2JQ, UK.

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August 2018

Orchestrating differential data access for translational research: a pilot implementation.

Authors:
Marco Brandizi Olga Melnichuk Raffael Bild Florian Kohlmayer Benedicto Rodriguez-Castro Helmut Spengler Klaus A Kuhn Wolfgang Kuchinke Christian Ohmann Timo Mustonen Mikael Linden Tommi Nyrönen Ilkka Lappalainen Alvis Brazma Ugis Sarkans

BMC Med Inform Decis Mak 2017 03 23;17(1):30. Epub 2017 Mar 23.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, CB10 1SD, UK.

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March 2017

ArrayExpress update--simplifying data submissions.

Authors:
Nikolay Kolesnikov Emma Hastings Maria Keays Olga Melnichuk Y Amy Tang Eleanor Williams Miroslaw Dylag Natalja Kurbatova Marco Brandizi Tony Burdett Karyn Megy Ekaterina Pilicheva Gabriella Rustici Andrew Tikhonov Helen Parkinson Robert Petryszak Ugis Sarkans Alvis Brazma

Nucleic Acids Res 2015 Jan 31;43(Database issue):D1113-6. Epub 2014 Oct 31.

European Molecular Biology Laboratory, European Bioinformatics Institute, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, CB10 1SD, UK

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January 2015

The EBI RDF platform: linked open data for the life sciences.

Authors:
Simon Jupp James Malone Jerven Bolleman Marco Brandizi Mark Davies Leyla Garcia Anna Gaulton Sebastien Gehant Camille Laibe Nicole Redaschi Sarala M Wimalaratne Maria Martin Nicolas Le Novère Helen Parkinson Ewan Birney Andrew M Jenkinson

Bioinformatics 2014 May 11;30(9):1338-9. Epub 2014 Jan 11.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK and SIB Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1211 Geneve, Switzerland.

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May 2014

Updates to BioSamples database at European Bioinformatics Institute.

Authors:
Adam Faulconbridge Tony Burdett Marco Brandizi Mikhail Gostev Rui Pereira Drashtti Vasant Ugis Sarkans Alvis Brazma Helen Parkinson

Nucleic Acids Res 2014 Jan 21;42(Database issue):D50-2. Epub 2013 Nov 21.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK.

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January 2014

ArrayExpress update--trends in database growth and links to data analysis tools.

Authors:
Gabriella Rustici Nikolay Kolesnikov Marco Brandizi Tony Burdett Miroslaw Dylag Ibrahim Emam Anna Farne Emma Hastings Jon Ison Maria Keays Natalja Kurbatova James Malone Roby Mani Annalisa Mupo Rui Pedro Pereira Ekaterina Pilicheva Johan Rung Anjan Sharma Y Amy Tang Tobias Ternent Andrew Tikhonov Danielle Welter Eleanor Williams Alvis Brazma Helen Parkinson Ugis Sarkans

Nucleic Acids Res 2013 Jan 27;41(Database issue):D987-90. Epub 2012 Nov 27.

Functional Genomics Team, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton CB10 1SD, UK.

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January 2013

graph2tab, a library to convert experimental workflow graphs into tabular formats.

Authors:
Marco Brandizi Natalja Kurbatova Ugis Sarkans Philippe Rocca-Serra

Bioinformatics 2012 Jun 3;28(12):1665-7. Epub 2012 May 3.

European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK.

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June 2012

The BioSample Database (BioSD) at the European Bioinformatics Institute.

Authors:
Mikhail Gostev Adam Faulconbridge Marco Brandizi Julio Fernandez-Banet Ugis Sarkans Alvis Brazma Helen Parkinson

Nucleic Acids Res 2012 Jan 16;40(Database issue):D64-70. Epub 2011 Nov 16.

EMBL-EBI, the European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK.

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January 2012

Knowledge sharing and collaboration in translational research, and the DC-THERA Directory.

Authors:
Andrea Splendiani Michaela Gündel Jonathan M Austyn Duccio Cavalieri Ciro Scognamiglio Marco Brandizi

Brief Bioinform 2011 Nov 3;12(6):562-75. Epub 2011 Oct 3.

IntelliLeaf Ltd, Cambridge CB1 3UF, UK.

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November 2011

DC-ATLAS: a systems biology resource to dissect receptor specific signal transduction in dendritic cells.

Authors:
Duccio Cavalieri Damariz Rivero Luca Beltrame Sonja I Buschow Enrica Calura Lisa Rizzetto Sandra Gessani Maria C Gauzzi Walter Reith Andreas Baur Roberto Bonaiuti Marco Brandizi Carlotta De Filippo Ugo D'Oro Sorin Draghici Isabelle Dunand-Sauthier Evelina Gatti Francesca Granucci Michaela Gündel Matthijs Kramer Mirela Kuka Arpad Lanyi Cornelis Jm Melief Nadine van Montfoort Renato Ostuni Philippe Pierre Razvan Popovici Eva Rajnavolgyi Stephan Schierer Gerold Schuler Vassili Soumelis Andrea Splendiani Irene Stefanini Maria G Torcia Ivan Zanoni Raphael Zollinger Carl G Figdor Jonathan M Austyn

Immunome Res 2010 Nov 19;6:10. Epub 2010 Nov 19.

Department of Pharmacology, University of Firenze, Firenze, Italy.

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November 2010

ArrayExpress update--an archive of microarray and high-throughput sequencing-based functional genomics experiments.

Authors:
Helen Parkinson Ugis Sarkans Nikolay Kolesnikov Niran Abeygunawardena Tony Burdett Miroslaw Dylag Ibrahim Emam Anna Farne Emma Hastings Ele Holloway Natalja Kurbatova Margus Lukk James Malone Roby Mani Ekaterina Pilicheva Gabriella Rustici Anjan Sharma Eleanor Williams Tomasz Adamusiak Marco Brandizi Nataliya Sklyar Alvis Brazma

Nucleic Acids Res 2011 Jan 10;39(Database issue):D1002-4. Epub 2010 Nov 10.

Functional Genomics Team, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton CB10 1SD, UK.

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January 2011

ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level.

Authors:
Philippe Rocca-Serra Marco Brandizi Eamonn Maguire Nataliya Sklyar Chris Taylor Kimberly Begley Dawn Field Stephen Harris Winston Hide Oliver Hofmann Steffen Neumann Peter Sterk Weida Tong Susanna-Assunta Sansone

Bioinformatics 2010 Sep 2;26(18):2354-6. Epub 2010 Aug 2.

The European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK.

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September 2010

Towards interoperable reporting standards for omics data: hopes and hurdles.

Authors:
Susanna-Assunta Sansone Philippe Rocca-Serra Dawn Field Chris F Taylor Weida Tong Marco Brandizi Eamonn Maguire Nataliya Sklyar

Summit Transl Bioinform 2009 Mar 1;2009:112-5. Epub 2009 Mar 1.

European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK.

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March 2009

ArrayExpress update--from an archive of functional genomics experiments to the atlas of gene expression.

Authors:
Helen Parkinson Misha Kapushesky Nikolay Kolesnikov Gabriella Rustici Mohammad Shojatalab Niran Abeygunawardena Hugo Berube Miroslaw Dylag Ibrahim Emam Anna Farne Ele Holloway Margus Lukk James Malone Roby Mani Ekaterina Pilicheva Tim F Rayner Faisal Rezwan Anjan Sharma Eleanor Williams Xiangqun Zheng Bradley Tomasz Adamusiak Marco Brandizi Tony Burdett Richard Coulson Maria Krestyaninova Pavel Kurnosov Eamonn Maguire Sudeshna Guha Neogi Philippe Rocca-Serra Susanna-Assunta Sansone Nataliya Sklyar Mengyao Zhao Ugis Sarkans Alvis Brazma

Nucleic Acids Res 2009 Jan 10;37(Database issue):D868-72. Epub 2008 Nov 10.

European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK.

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January 2009

The first RSBI (ISA-TAB) workshop: "can a simple format work for complex studies?".

Authors:
Susanna-Assunta Sansone Philippe Rocca-Serra Marco Brandizi Alvis Brazma Dawn Field Jennifer Fostel Andrew G Garrow Jack Gilbert Federico Goodsaid Nigel Hardy Phil Jones Allyson Lister Michael Miller Norman Morrison Tim Rayner Nataliya Sklyar Chris Taylor Weida Tong Guy Warner Stefan Wiemann

OMICS 2008 Jun;12(2):143-9

EMBL-EBI The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom.

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June 2008

The genopolis microarray database.

Authors:
Andrea Splendiani Marco Brandizi Gael Even Ottavio Beretta Norman Pavelka Mattia Pelizzola Manuel Mayhaus Maria Foti Giancarlo Mauri Paola Ricciardi-Castagnoli

BMC Bioinformatics 2007 Mar 8;8 Suppl 1:S21. Epub 2007 Mar 8.

Department Informatics, Systemistics and Communication, University of Milano-Bicocca, Via degli Arcimboldi 8, Milano, Italy.

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March 2007