Saturday February 04, 2012
About Oriel's History
THIS WEB SITE
IS NO LONGER OWNED BY THE PEOPLE BEHIND THE ORIGINAL ORIEL PROJECT. HOWEVER,
AS THEY RELEASED THIS INFORMATION AS PUBLIC DOMAIN, AND WE FEEL THIS IS
ACTUALLY AN INTERESTING READ AN REASONABLY IMPORTANT HISTORICALLY FOR THE
PEOPLE IN THE BIOMEDICAL FIELD, WE HAVE DECIDED TO LEAVE THIS PAGE INTACT ON
OUR SITE, BE IT SOMEWHAT DEEP IN THE STRUCTURE. PLEASE DO BE ADVISED THE
CURRENT OWNERS OF ORIEL.ORG ARE NOT RESPONSIBLE FOR THIS PAGE, AND DO NOT
CLAIM TO BE EITHER.
The ORIEL Project
...is developing tools and procedures to promote access to and integration of a wide range of information resources in the life sciences.
The tools developed through ORIEL will:
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enable effective linking of different types of biological information (literature, factual and multimedia databases)
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make navigation easy, thereby encouraging the creative exploration of the information landscape
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facilitate communication by making data presentation and information visualisation user-friendly.
Aims
- The ORIEL Project (IST-2001-32688), funded by the EU and coordinated by the European Molecular Biology Organisation (EMBO) aims to provide research communities with tools to manage large, complex, multimedia datasets and to navigate through an increasingly intricate and potentially confusing information landscape.
- ORIEL's methodologies will be tested and applied in a critical user environment represented by the EU-funded E-BioSci platform (QLRI-CT-2001-30266).
- Methods -
- leading to the creation of new concepts of the scientific literature, based on machine-understandable documents.
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Technologies -
- permitting effective linking of a wide range of biological digital information sources, including molecular, genomic and multi-dimensional image databases,
- promoting ease of cross-database navigation, leading to creative exploration of the information landscape.
- Protocols
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- facilitating effective data representation and information visualisation through the construction of adaptive interfaces that meet the needs of individual users.
- The emerging fields of genomics and bio-informatics are having far-reaching effects on all aspects of the Life Sciences. Additionally, biotechnology and biomedicine, that will benefit enormously from new genome-based technologies, have become important growth areas in the European life sciences industry.
- Genomics research is characterized by the production of vast amounts of raw and derived data. The integration of the exponentially growing amounts of these and associated biological information in digital form (publications, sequence and sequence-related information, digital image data) is presenting one of the most demanding current challenges to information technology.
- There is an urgent need to better exploit the potential of the Internet and other communication networks to develop novel technology and intelligent middleware for the integration of large, complex and disparate information resources.
- The ORIEL
project will explore and further develop methods, technologies
and protocols aimed at the integration, dissemination and
exploitation of large, complex and disparate digital information
resources. With a view to making such technologies widely available,
it will focus on the Life Sciences as a data-intensive and highly
demanding testbed that will
- permit effective linking of different types of biological information displaying complex inter-relationships (literature, factual and multi-media image databases)
- promote ease of navigation leading to creative exploration of the information landscape and
- facilitate user-friendly data presentation and information visualisation.
- The development of new concepts that will enhance the efficiency of integration of different types of biological data currently maintained in a wide spectrum of digital collections and resources across Europe.
- The development and optimization of interactive and adaptive user interfaces to promote intelligent access to, retrieval and analysis of data stored in digital form.
- E-BioSci is EMBO's initiative to provide a federated network of European platforms for a wide range of high quality electronic services relating to information access and retrieval in the life sciences.
- The ORIEL Project will promote access to and integration of E-BioSci services. In return, E-BioSci will provide a staging area in which ORIEL components can be pre-released prior to rigourous testing by sub-sets of research community users. This staging facility will serve both as development area for testing and integrating ORIEL prototypes within E-BioSci, as well as evaluating their effectiveness with core users of the live service.
- Both projects build on the complementary expertises and strengths of partner institutions in different locations in Europe. They aim to foster optimal pooling and use of European biological archives and data collections, and will involve the development of common protocols for efficient searching and retrieval of different types of information (including images, sequence data and full text published literature) held in different locations and in different formats. Some of these goals are long term and will require significant research and prototyping to achieve them.
Graphic representation of the relationships between ORIEL and E-BioSci projects
ORIEL Partners
CINES | CNR-IBC | CNR-ITB | CSIC | EBI | EMBO | EUR |
ICGEB | IGH | ingenta | INRIA | LIRMM | University of Oxford
CINES (Centre Informatique National de l'Enseignement Supérieur)
(Workpackages WP5, WP6, WP7)
- Created in 1980 in Montpellier (France), CINES is supervised by the French Ministry of Research and provides the French research community with computing resources and services. CINES' three core competencies are:
- High performance computing: Numerous scientific disciplines use equipment of the Centre for resolving problems which require extreme powers of calculation and large memory capacities. CINES also offers users the possibility to visualise the results of calculations by animated sequences and to produce supports of broadcasting.
- Large databases and documentation systems: CINES is the privileged partner of the Higher Education Bibliographical Agency (ABES) as well as the official server of the libraries network SIBIL-FRANCE. CINES is also involved in several multimedia projects.
- Wide Area Network expertise: CINES is connected to the French National Research Network (RENATER) and also participates in the national network committee CRU and its different workgroups. A RENATER local office will soon be located in the CINES building. Many collaborations are in progress between RENATER and CINES, including security and performance.
- For more information, please visit: http://www.cines.fr
CNR-IBC (Consiglio Nazionale delle Ricerche) (National Research Centre)
(Workpackage WP3, WP6, WP7)
- Hosts the CNR-EMMA facility of the European Mouse Mutant Archive. In collaboration with European partners and the Mouse Genome DataBase at the Jackson Laboratory, it has defined informatics policies aimed at the implementation of the EMMA-Resource DataBase (EMMA-RDB).
- For more information, please vist http://www.cnr.it.
CNR-ITB (Consiglio Nazionale delle Ricerche) (National Research Centre)
(Workpackage WP3, WP6, WP7)
- Bio-informatics division of CNR, which was established in 1989 to work on the framework of the Human Genome Project. Originally focused on developing tools for the genome sequence analysis and prediction of gene structure in different organisms, attention has more recently been shifted towards study of genefunction, promoter prediction, gene expression analysis and the development of databases integrated with sequence analysis tools.
- For more information, please vist http://www.cnr.it.
CSIC (Consejo Superior de Investigaciones Científicas)
(Workpackage WP4, WP7)
- The Spanish Council for Scientific Research (CSIC), established in 1939, is the largest multidisciplinary public research organisation in Spain. It is an autonomous body within the Ministry of Science and Technology and its main objective is to promote and carry out research contributing to scientific and technological progress in Spain. The CSIC can be considered as the backbone for development of science and technology in Spain. The research activities of CSCI cover virtually every field of knowledge: Agricultural Sciences, Biology & Biomedicine, Chemistry, Science & Technology, Food Science & Technology, Humanities & Social Sciences, Materials Science & Technology, Natural Resources, Physics: Science & Technology
- As a part of its commitment to the Spanish scientific community, the CSIC makes available a part of its infrastructure and a variety of services, among which mention may be made of its information, documentation and library networks.
- For more information,
please visit:
http://www.csic.es
EMBL-EBI (European Bioinformatics Institute)
(Workpackage WP4, WP7)
- The European Bioinformatics Institute (EBI) is the central European node for managing factual databases in the Life Sciences. The following databases are managed at the EBI:
- The International DNA data library, the Swissprot and SPTREMBL protein database, the EMBL Interpro database of protein families, the European Macromolecular Structure Database (MSD), the Array Express database of microarray data and the ENSEMBL databases of annotated large scale genomic sequence.
- In addition to providing these databases and services built on top of these, EBI has a vigorous research role in bioinformatics. Both data sources and new algorithms are investigated and developed at the EBI, along with research into technical developments to enable new technologies to be deployed for life sciences.
- EBI is at the Hinxton Wellcome Trust Genome Campus, which is the world's premier campus for public domain large scale life science data research.
- For more information,
please visit:
http://www.ebi.ac.uk.
EMBO (European Molecular Biology Organization)
(Workpackages WP0, WP7, WP8)
- Active development and support of trans-national approaches to molecular biology through fellowships, courses and workshops. Leads in European molecular biology publishing (EMBO Journal, EMBOreports).
- For more information, please visit: http://www.embo.org.
BioSemantics Group, Department of Medical Informatics, Erasmus University
The Biosemantics Group Rotterdam is an initiative of the Department of Medical Informatics of the Erasmus MC - University Medical Center Rotterdam, the Netherlands. Through innovative fundamental and applied research it aims at developing and validating advanced techniques for the processing and analysis of large, complex, and heterogeneous medical and biological data sets. In addition to research the group is involved in the training of under- and postgraduate medical students and radiologists.
ICGEB (International Centre for Genetic Engineering and Biotechnology)
(Workpackage WP3, WP7)
- International research organization focussing on advanced research and teaching in molecular biology and biotechnology. Maintains the ICGEBnet Bioinformatics Service with over 1100 users throughout the world. Bioinformatics research at ICGEB is carried out in two main areas: a) Maintenance and development of SBASE protein sequence domain library and b) physico-chemical properties of DNA.
- For further information, please visit: http://www.icgeb.trieste.it.
IGH (Institut de Génétique Humaine)
(Workpackage WP5, WP6, WP7)
(Workpackages WP1, WP6)
- Ingenta was formed through a public/private partnership with the University of Bath to provide electronic distribution and marketing for the publishers of scholarly content and to develop the industry's primary portal site for the knowledge worker. Ingenta operates the renowned BIDS services for the UK higher education community. Ingenta bases its North American operation in Cambridge, MA and its European operations in Oxford and Bath, UK.
- In March 2000 Ingenta merged with the UnCover Company and in May 2000 it became listed on the AIM market of the London Stock Exchange. In June 2000 Ingenta acquired the Publishers Communication Group (PCG), based in Cambridge, MA. In October 2000, Ingenta acquired Dynamic Diagrams. In February 2001, Ingenta merged with CatchWord. In March 2002, Ingenta acquired HERON, formerly a government-funded initiative providing online course packs to Higher Education Institutions in the UK.
- The combined company currently works for almost 200 publisher clients, and hosts or links to 5,400+ academic journals. The Group’s customer base includes 7 of the world’s top 8 journal publishers – Blackwell Publishing, Elsevier Science (including Academic Press), John Wiley & Sons, Kluwer Academic Publishers, Oxford University Press, Taylor & Francis and the Sage Group.
- For more information,
please visit:
http://www.ingenta.com
INRIA (Institut National de Recherche en Informatique et Automatique)
(Workpackage WP2, WP7)
LIRMM (Laboratoire d'Informatique, de Robotique et de Microéelectronique de Montpellier)
(Workpackage WP5, WP6, WP7)
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(Workpackage WP1, WP7)
- Founding partner of the 4th Framework BioImage Database Project, with responsibility for digital video data. Experience in digital video encoding and compression artefacts, automated content analysis and query by content of biological videos. Developer of VIDOS, a patent-pending Web-based video editing and customization tool.
- For more information, please visit: http://www.ox.ac.uk.