Susanna‐Assunta Sansone
A5008806860- Research Data Management Practices
- Biomedical Text Mining and Ontologies
- Scientific Computing and Data Management
- Bioinformatics and Genomic Networks
- Semantic Web and Ontologies
- Metabolomics and Mass Spectrometry Studies
- Genetics, Bioinformatics, and Biomedical Research
- Gene expression and cancer classification
- Genomics and Phylogenetic Studies
- Microbial Community Ecology and Physiology
- Environmental DNA in Biodiversity Studies
- Data Quality and Management
- Molecular Biology Techniques and Applications
- Cell Image Analysis Techniques
- Big Data and Business Intelligence
- COVID-19 diagnosis using AI
- Computational Drug Discovery Methods
- Species Distribution and Climate Change
- Ethics in Clinical Research
- Data Visualization and Analytics
- Nutrition, Genetics, and Disease
- Advanced Proteomics Techniques and Applications
- AI in cancer detection
- Artificial Intelligence in Healthcare and Education
- Data Mining Algorithms and Applications
University of Oxford
2015-2024
Science Oxford
2017-2023
Oxford Research Group
2023
DKFZ-ZMBH Alliance
2023
Heidelberg University
2023
Digital Research Alliance of Canada
2023
Harvard University Press
2004-2020
Ronin Institute
2020
Royal Holloway University of London
2020
Queen's Medical Centre
2020
There is an urgent need to improve the infrastructure supporting reuse of scholarly data. A diverse set stakeholders-representing academia, industry, funding agencies, and publishers-have come together design jointly endorse a concise measureable principles that we refer as FAIR Data Principles. The intent these may act guideline for those wishing enhance reusability their data holdings. Distinct from peer initiatives focus on human scholar, Principles put specific emphasis enhancing ability...
MetaboLights (http://www.ebi.ac.uk/metabolights) is the first general-purpose, open-access repository for metabolomics studies, their raw experimental data and associated metadata, maintained by one of major providers in molecular biology. Metabolomic profiling an important tool research into biological functioning systemic perturbations caused diseases, diet environment. The effectiveness such methods depends on availability public open across a broad range conditions. repository, powered...
ArrayExpress http://www.ebi.ac.uk/arrayexpress consists of three components: the Repository—a public archive functional genomics experiments and supporting data, Warehouse—a database gene expression profiles other bio-measurements Atlas—a new summary meta-analytical tool ranked across multiple different biological conditions. The Repository contains data from over 6000 comprising approximately 200 000 assays, doubles in size every 15 months. majority are array based, but types included, most...
To make full use of research data, the bioscience community needs to adopt technologies and reward mechanisms that support interoperability promote growth an open 'data commoning' culture. Here we describe prerequisites for data commoning present established growing ecosystem solutions using shared 'Investigation-Study-Assay' framework vision.
The Ontology for Biomedical Investigations (OBI) is an ontology that provides terms with precisely defined meanings to describe all aspects of how investigations in the biological and medical domains are conducted. OBI re-uses ontologies provide a representation biomedical knowledge from Open Biological Ontologies (OBO) project adds ability this was derived. We here state several applications using it, such as adding semantic expressivity existing databases, building data entry forms,...
Abstract Summary: The first open source software suite for experimentalists and curators that (i) assists in the annotation local management of experimental metadata from high-throughput studies employing one or a combination omics other technologies; (ii) empowers users to uptake community-defined checklists ontologies; (iii) facilitates submission international public repositories. Availability Implementation: Software, documentation, case implementations at http://www.isa-tools.org...
The FAIR principles have been widely cited, endorsed and adopted by a broad range of stakeholders since their publication in 2016. By intention, the 15 guiding do not dictate specific technological implementations, but provide guidance for improving Findability, Accessibility, Interoperability Reusability digital resources. This has likely contributed to adoption principles, because individual stakeholder communities can implement own solutions. However, it also resulted inconsistent...
Experimental descriptions are typically stored as free text without using standardized terminology, creating challenges in comparison, reproduction and analysis. These difficulties impose limitations on data exchange information retrieval.
A vast and rich body of information has grown up as a result the world's enthusiasm for 'omics technologies. Finding ways to describe make available this that maximise its usefulness become major effort across world. At heart is Genomic Standards Consortium (GSC), an open-membership organization drives community-based standardization activities, Here we provide short history GSC, overview range current call scientific community join forces improve quality quantity contextual about our public...
The FAIR Principles 1 (https:/
Abstract The notion that data should be Findable, Accessible, Interoperable and Reusable, according to the FAIR Principles, has become a global norm for good stewardship prerequisite reproducibility. Nowadays, guides policy actions professional practices in public private sectors. Despite such endorsements, however, Principles are aspirational, remaining elusive at best, intimidating worst. To address lack of practical guidance, help with capability gaps, we developed Cookbook, an open,...
Abstract Motivation: The generation of large amounts microarray data and the need to share these bring challenges for both management annotation highlights standards. MIAME specifies minimum information needed describe a experiment Microarray Gene Expression Object Model (MAGE-OM) resulting MAGE-ML provide mechanism standardize representation exchange, however common terminology is support Results: Here we MGED Ontology (MO) developed by Working Group Data (MGED) Society. MO provides terms...