Susanna-Assunta Sansone

Susanna-Assunta Sansone

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Susanna-Assunta Sansone

Susanna-Assunta Sansone

Publications by authors named "Susanna-Assunta Sansone"

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TeSS: a platform for discovering life science training opportunities.

Bioinformatics 2020 Feb 11. Epub 2020 Feb 11.

Department of Computer Science, The University of Manchester, M13 9PL, UK.

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http://dx.doi.org/10.1093/bioinformatics/btaa047DOI Listing
February 2020

Experiment design driven FAIRification of omics data matrices, an exemplar.

Sci Data 2019 12 12;6(1):271. Epub 2019 Dec 12.

Oxford e-Research Centre, Department of Engineering Science, University of Oxford, 7 Keble Road, Oxford, OX1 3QG, United Kingdom.

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http://dx.doi.org/10.1038/s41597-019-0286-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6908569PMC
December 2019

A design framework and exemplar metrics for FAIRness.

Sci Data 2018 06 26;5:180118. Epub 2018 Jun 26.

Institute of Data Science, Maastricht University, Maastricht, The Netherlands.

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http://dx.doi.org/10.1038/sdata.2018.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6018520PMC
June 2018

High-quality science requires high-quality open data infrastructure.

Sci Data 2018 02 27;5:180027. Epub 2018 Feb 27.

STFC Rutherford Appleton Laboratory, Scientific Computing, Harwell Campus, Didcot OX11 0QX, UK.

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http://dx.doi.org/10.1038/sdata.2018.27DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5827691PMC
February 2018

The international MAQC Society launches to enhance reproducibility of high-throughput technologies.

Nat Biotechnol 2017 12;35(12):1127-1128

National Center for Toxicological Research, US Food and Drug Administration, Jefferson, Arkansas, USA.

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http://dx.doi.org/10.1038/nbt.4029DOI Listing
December 2017

Modeling a microbial community and biodiversity assay with OBO Foundry ontologies: the interoperability gains of a modular approach.

Database (Oxford) 2015 28;2015. Epub 2015 Jan 28.

Oxford e-Research Centre, University of Oxford, OX1 3QG, Oxford, UK, The iPlant Collaborative, University of Arizona, Thomas J. Keating Bioresearch Building, 1657 East Helen St., Tucson, AZ 85721, USA, NEON, Inc. 1685 38th St., Ste. 100, Boulder, CO 80301, USA, University of Arizona, 1311 E. 4th St. Tucson, AZ 85721, USA and Department of Genetics and Institute of Biomedical Informatics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.

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http://dx.doi.org/10.1093/database/bau132DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4309925PMC
September 2015

A sea of standards for omics data: sink or swim?

J Am Med Inform Assoc 2014 Mar-Apr;21(2):200-3. Epub 2013 Sep 27.

Duke Translational Medicine Institute, Duke University, Durham, North Carolina, USA.

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https://academic.oup.com/jamia/article-lookup/doi/10.1136/am
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http://dx.doi.org/10.1136/amiajnl-2013-002066DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3932466PMC
May 2014

The founding charter of the Genomic Observatories Network.

Gigascience 2014 Mar 7;3(1). Epub 2014 Mar 7.

Gump South Pacific Research Station, University of California Berkeley, BP 244 98728 Moorea, French Polynesia.

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http://dx.doi.org/10.1186/2047-217X-3-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3995929PMC
March 2014

EBI metagenomics--a new resource for the analysis and archiving of metagenomic data.

Nucleic Acids Res 2014 Jan 27;42(Database issue):D600-6. Epub 2013 Oct 27.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, CB10 1SD, UK, Oxford e-Research Centre, University of Oxford, 7 Keble Road, Oxford, OX1 3QG, UK and NERC Centre for Ecology and Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford, OX10 8BB, UK.

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http://dx.doi.org/10.1093/nar/gkt961DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3965009PMC
January 2014

Visual compression of workflow visualizations with automated detection of macro motifs.

IEEE Trans Vis Comput Graph 2013 Dec;19(12):2576-85

University of Oxford.

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http://dx.doi.org/10.1109/TVCG.2013.225DOI Listing
December 2013

The Stem Cell Commons: an exemplar for data integration in the biomedical domain driven by the ISA framework.

AMIA Jt Summits Transl Sci Proc 2013 18;2013:70. Epub 2013 Mar 18.

Harvard School of Public Health, Biostatistics, Boston, MA, USA ; Harvard Stem Cell Institute, Cambridge, MA, USA.

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December 2013

The MetaboLights repository: curation challenges in metabolomics.

Database (Oxford) 2013 29;2013:bat029. Epub 2013 Apr 29.

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

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http://dx.doi.org/10.1093/database/bat029DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3638156PMC
October 2013

MetaboLights: towards a new COSMOS of metabolomics data management.

Metabolomics 2012 Oct 25;8(5):757-760. Epub 2012 Sep 25.

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

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http://dx.doi.org/10.1007/s11306-012-0462-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3465651PMC
October 2012

A call for an international network of genomic observatories (GOs).

Gigascience 2012 Jul 12;1(1). Epub 2012 Jul 12.

Biodiversity Institute, Department of Zoology, University of Oxford, The Tinbergen Building, South Parks Road, Oxford, OX1 3PS, UK.

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http://dx.doi.org/10.1186/2047-217X-1-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3617453PMC
July 2012

On the evolving portfolio of community-standards and data sharing policies: turning challenges into new opportunities.

Gigascience 2012 Jul 12;1(1):10. Epub 2012 Jul 12.

Oxford e-Research Centre, University of Oxford, Oxford, UK.

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http://dx.doi.org/10.1186/2047-217X-1-10DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3626509PMC
July 2012

The Metadata Coverage Index (MCI): A standardized metric for quantifying database metadata richness.

Stand Genomic Sci 2012 Jul 20;6(3):438-47. Epub 2012 Jul 20.

Microbial Genomics and Metagenomic Super Program, Department of Energy Joint Genome Institute, Walnut Creek, CA, USA.

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http://dx.doi.org/10.4056/sigs.2675953DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3558968PMC
July 2012

The genomic standards consortium: bringing standards to life for microbial ecology.

ISME J 2011 Oct 7;5(10):1565-7. Epub 2011 Apr 7.

Microbial Genomics and Bioinformatics Group, Max Planck Institute for Marine Microbiology, Bremen, Germany.

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http://dx.doi.org/10.1038/ismej.2011.39DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3176512PMC
October 2011

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.

Authors:
Pelin Yilmaz Renzo Kottmann Dawn Field Rob Knight James R Cole Linda Amaral-Zettler Jack A Gilbert Ilene Karsch-Mizrachi Anjanette Johnston Guy Cochrane Robert Vaughan Christopher Hunter Joonhong Park Norman Morrison Philippe Rocca-Serra Peter Sterk Manimozhiyan Arumugam Mark Bailey Laura Baumgartner Bruce W Birren Martin J Blaser Vivien Bonazzi Tim Booth Peer Bork Frederic D Bushman Pier Luigi Buttigieg Patrick S G Chain Emily Charlson Elizabeth K Costello Heather Huot-Creasy Peter Dawyndt Todd DeSantis Noah Fierer Jed A Fuhrman Rachel E Gallery Dirk Gevers Richard A Gibbs Inigo San Gil Antonio Gonzalez Jeffrey I Gordon Robert Guralnick Wolfgang Hankeln Sarah Highlander Philip Hugenholtz Janet Jansson Andrew L Kau Scott T Kelley Jerry Kennedy Dan Knights Omry Koren Justin Kuczynski Nikos Kyrpides Robert Larsen Christian L Lauber Teresa Legg Ruth E Ley Catherine A Lozupone Wolfgang Ludwig Donna Lyons Eamonn Maguire Barbara A Methé Folker Meyer Brian Muegge Sara Nakielny Karen E Nelson Diana Nemergut Josh D Neufeld Lindsay K Newbold Anna E Oliver Norman R Pace Giriprakash Palanisamy Jörg Peplies Joseph Petrosino Lita Proctor Elmar Pruesse Christian Quast Jeroen Raes Sujeevan Ratnasingham Jacques Ravel David A Relman Susanna Assunta-Sansone Patrick D Schloss Lynn Schriml Rohini Sinha Michelle I Smith Erica Sodergren Aymé Spo Jesse Stombaugh James M Tiedje Doyle V Ward George M Weinstock Doug Wendel Owen White Andrew Whiteley Andreas Wilke Jennifer R Wortman Tanya Yatsunenko Frank Oliver Glöckner

Nat Biotechnol 2011 May;29(5):415-20

Microbial Genomics and Bioinformatics Group, Max Planck Institute for Marine Microbiology, Bremen, Germany.

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https://darchive.mblwhoilibrary.org/bitstream/handle/1912/46
Web Search
http://www.nature.com/doifinder/10.1038/nbt.1823
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http://dx.doi.org/10.1038/nbt.1823DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3367316PMC
May 2011

Standardization Initiatives in the (eco)toxicogenomics domain: a review.

Comp Funct Genomics 2004 ;5(8):633-41

EMBL-EBI, The European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge CB10 1SD, United Kingdom.

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http://dx.doi.org/10.1002/cfg.447DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2447477PMC
June 2010

Selected papers from the 12th annual Bio-Ontologies meeting.

J Biomed Semantics 2010 Jun 22;1 Suppl 1:I1. Epub 2010 Jun 22.

Aberystwyth University, Wales, UK.

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http://dx.doi.org/10.1186/2041-1480-1-S1-I1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2903719PMC
June 2010

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

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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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3041584PMC
March 2009

Foreword to the special issue on the Fifth Genomic Standards consortium workshop.

OMICS 2008 Jun;12(2):99

NERC Centre for Ecology and Hydrology, Mansfield Rd, Oxford OX1 3SR, United Kingdom.

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http://dx.doi.org/10.1089/omi.2008.0013DOI Listing
June 2008

Facilitating the development of controlled vocabularies for metabolomics technologies with text mining.

BMC Bioinformatics 2008 Apr 29;9 Suppl 5:S5. Epub 2008 Apr 29.

Manchester Centre for Integrative Systems Biology, The University of Manchester, 131 Princess Street, Manchester, M1 7ND, UK.

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http://dx.doi.org/10.1186/1471-2105-9-S5-S5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2367623PMC
April 2008

A strategy capitalizing on synergies: the Reporting Structure for Biological Investigation (RSBI) working group.

OMICS 2006 ;10(2):164-71

EMBL-EBI, European Nutrigenomics Organisation (NuGO), Hinxton, Cambridge, United Kingdom.

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http://dx.doi.org/10.1089/omi.2006.10.164DOI Listing
November 2007

The use of concept maps during knowledge elicitation in ontology development processes--the nutrigenomics use case.

BMC Bioinformatics 2006 May 25;7:267. Epub 2006 May 25.

Microarray Informatics Team, The European Bioinformatics Institute--European Molecular Biology Laboratory Outstation, Wellcome Trust Genome Campus CB10 1SD, Cambridge Hinxton, UK.

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http://bmcbioinformatics.biomedcentral.com/articles/10.1186/
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http://dx.doi.org/10.1186/1471-2105-7-267DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1524992PMC
May 2006

Defining best practice for microarray analyses in nutrigenomic studies.

Br J Nutr 2005 Apr;93(4):425-32

Institute of Food Research, Norwich Research Park, Norwich NR5 7UA, UK.

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http://dx.doi.org/10.1079/bjn20041385DOI Listing
April 2005