A5027899893- Scientific Computing and Data Management
- Research Data Management Practices
- Distributed and Parallel Computing Systems
- Semantic Web and Ontologies
- Biomedical Text Mining and Ontologies
- Service-Oriented Architecture and Web Services
- Genetics, Bioinformatics, and Biomedical Research
- Bioinformatics and Genomic Networks
- Advanced Database Systems and Queries
- Genomics and Phylogenetic Studies
- Digital Accessibility for Disabilities
- Data Quality and Management
- Usability and User Interface Design
- Web Data Mining and Analysis
- Business Process Modeling and Analysis
- Advanced Data Storage Technologies
- Peer-to-Peer Network Technologies
- Gene expression and cancer classification
- Data Management and Algorithms
- Microbial Metabolic Engineering and Bioproduction
- Multimedia Communication and Technology
- Cloud Computing and Resource Management
- Advanced Computational Techniques and Applications
- Tactile and Sensory Interactions
- Data Visualization and Analytics
University of Manchester
2016-2025
Université de Yaoundé I
2024
Milliman (United States)
2021-2023
Manado State University
2021-2023
European Bioinformatics Institute
2003-2022
Ontario Institute for Cancer Research
2022
Health Information Management
1992-2021
Natural History Museum
2020
Science Oxford
2017-2020
Naturalis Biodiversity Center
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...
Taverna is an application that eases the use and integration of growing number molecular biology tools databases available on web, especially web services. It allows bioinformaticians to construct workflows or pipelines services perform a range different analyses, such as sequence analysis genome annotation. These high-level can integrate many resources into single analysis. freely under terms GNU Lesser General Public License (LGPL) from http://taverna.sourceforge.net/ .
Many bioinformatics data resources not only hold in the form of sequences, but also as annotation. In majority cases, annotation is written scientific natural language: this suitable for humans, particularly useful machine processing. Ontologies offer a mechanism by which knowledge can be represented capable such paper we investigate use ontological to measure similarities content or 'semantic similarity' between entries resource. These allow bioinformatician perform similarity over an...
The Taverna workflow tool suite (http://www.taverna.org.uk) is designed to combine distributed Web Services and/or local tools into complex analysis pipelines. These pipelines can be executed on desktop machines or through larger infrastructure (such as supercomputers, Grids cloud environments), using the Server. In bioinformatics, workflows are typically used in areas of high-throughput omics analyses (for example, proteomics transcriptomics), for evidence gathering methods involving text...
Abstract Life sciences research is based on individuals, often with diverse skills, assembled into groups. These groups use their specialist expertise to address scientific problems. The in silico experiments undertaken by these can be represented as workflows involving the co‐ordinated of analysis programs and information repositories that may globally distributed. With regards Grid computing, requirements relate sharing resources rather than computational power. my project has developed...
Workflows have emerged as a paradigm for representing and managing complex distributed computations are used to accelerate the pace of scientific progress. A recent National Science Foundation workshop brought together domain, computer, social scientists discuss requirements future applications challenges they present current workflow technologies.
The TAMBIS project aims to provide transparent access disparate biological databases and analysis tools, enabling users utilize a wide range of resources with the minimum effort. A prototype system has been developed that includes knowledge base terminology (the Concept Model), model underlying data sources Source Model) 'knowledge-driven' user interface. Biological concepts are captured in using description logic called GRAIL. Model provides necessary construct multiple-source queries,...
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.
Abstract Motivation: The myGrid project aims to exploit Grid technology, with an emphasis on the Information Grid, and provide middleware layers that make it appropriate for needs of bioinformatics. is building high level services data application integration such as resource discovery, workflow enactment distributed query processing. Additional are provided support scientific method best practice found at bench but often neglected workstation, notably provenance management, change...
myExperiment (http://www.myexperiment.org) is an online research environment that supports the social sharing of bioinformatics workflows. These workflows are procedures consisting a series computational tasks using web services, which may be performed on data from its retrieval, integration and analysis, to visualization results. As public repository workflows, allows anybody discover those relevant their research, can then reused repurposed specific requirements. Conversely, developers...
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...
The FAIR Guiding Principles, published in 2016, aim to improve the findability, accessibility, interoperability and reusability of digital research objects for both humans machines.Until now principles have been mostly applied data.The ideas behind these are, however, also directly relevant software.Hence there is a distinct need explore how can be software.In this work, we summarize current status debate around software, as basis development community-agreed software future.We discuss what...
The microbial production of fine chemicals provides a promising biosustainable manufacturing solution that has led to the successful growing catalog natural products and high-value chemicals. However, development at industrial levels been hindered by large resource investments required. Here we present an integrated Design-Build-Test-Learn (DBTL) pipeline for discovery optimization biosynthetic pathways, which is designed be compound agnostic automated throughout. We initially applied...
An increasing number of researchers support reproducibility by including pointers to and descriptions datasets, software methods in their publications. However, scientific articles may be ambiguous, incomplete difficult process automated systems. In this paper we introduce RO-Crate, an open, community-driven, lightweight approach packaging research artefacts along with metadata a machine readable manner. RO-Crate is based on Schema$.$org annotations JSON-LD, aiming establish best practices...
Standardizing computational reuse and portability with the Common Workflow Language.
Recent trends within computational and data sciences show an increasing recognition adoption of workflows as tools for productivity reproducibility that also democratize access to platforms processing know-how. As digital objects be shared, discovered, reused, benefit from the FAIR principles, which stand Findable, Accessible, Interoperable, Reusable. The Workflows Community Initiative's Working Group (WCI-FW), a global open community researchers developers working with across disciplines...