- Artificial Intelligence, Data Mining, Robotics, Computer Vision, Software Architecture, Decision Support Systems, and 11 moreSocial Development in developing countries, Sustainability in Higher Education, Linked Data, Biomedical informatics, Decision Making, Medical Informatics, Teacher Education in Developing Countries, E-learning, Environmental Sustainability, Sustainable Design, and Multidisciplinary design practicesedit
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Research Interests:
Biomedical Informatics (BMI) is the emerging discipline that aims to facilitate integration of Bioinformatics and Medical Informatics for the purpose of accelerating discovery and the generation of novel diagnostic and therapeutic... more
Biomedical Informatics (BMI) is the emerging discipline that aims to facilitate integration of Bioinformatics and Medical Informatics for the purpose of accelerating discovery and the generation of novel diagnostic and therapeutic modalities. Building on the success of the European Commission-funded BIOINFOMED Study, an INFOBIOMED Network of Excellence has been constituted with the main objective of setting a structure for a collaborative approach at a European level. Initially formed by fifteen European organizations, the main objective of the INFOBIOMED network is therefore to enable the reinforcement of European BMI at the forefront of these emergent interdisciplinary fields. The paper describes the structure of the network, the integration approaches regarding databases and four pilot applications.
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Aiming to address requirements concerning integration of services in the context of “big data”, this paper presents an innovative approach that (i) ensures a flexible, adaptable and scalable information and computation infrastructure, and... more
Aiming to address requirements concerning integration of services in the context of “big data”, this paper presents an innovative approach that (i) ensures a flexible, adaptable and scalable information and computation infrastructure, and (ii) exploits the competences of stakeholders and information workers to meaningfully confront information management issues such as information characterization, classification and interpretation, thus incorporating the underlying collective intelligence. Our approach pays much attention to the issues of usability and ease-of-use, not requiring any particular programming expertise from the end users. We report on a series of technical issues concerning the desired flexibility of the proposed integration framework and we provide related recommendations to developers of such solutions. Evaluation results are also discussed. Categories and Subject Descriptors H.5.3 [Information Interfaces and Presentation]: Group and Organization Interfaces – asynchr...
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During the last three years several initiatives have been deployed within INFOBIOMED, the European Network of Excellence (NoE) in Biomedical Informatics, for promoting research and education. In the context of genomic medicine, four... more
During the last three years several initiatives have been deployed within INFOBIOMED, the European Network of Excellence (NoE) in Biomedical Informatics, for promoting research and education. In the context of genomic medicine, four research pilots were designed. To address the informational complexities of such research problems, new educational approaches are needed.
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Although there is wide information about Biomedical Informatics education and courses in different Websites, information is usually not exhaustive and difficult to update. We propose a new methodology based on information retrieval... more
Although there is wide information about Biomedical Informatics education and courses in different Websites, information is usually not exhaustive and difficult to update. We propose a new methodology based on information retrieval techniques for extracting, indexing and retrieving automatically information about educational offers. A web application has been developed to make available such information in an inventory of courses and educational offers.
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ACGT is an IST-FP6 Integrated Project, funded by the European Commission, for the development of services to support clinico-genomic trials on cancer in a grid-based environment. In these trials, physicians and researchers need to access... more
ACGT is an IST-FP6 Integrated Project, funded by the European Commission, for the development of services to support clinico-genomic trials on cancer in a grid-based environment. In these trials, physicians and researchers need to access heterogeneous and disparate data sources. Semantic access to these data and the possibility to integrate them seamlessly are issues that ACGT aim to solve.
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A large number of biomedical resources are publicly available over the Internet. This number grows every day. Biomedical researchers face the problem of locating, identifying and selecting the most appropriate resources according to their... more
A large number of biomedical resources are publicly available over the Internet. This number grows every day. Biomedical researchers face the problem of locating, identifying and selecting the most appropriate resources according to their interests. Some resource indexes can be found in the Internet, but they only provide information and links related to resources created by the owner institution of each website. In this paper we propose a novel method for extracting information from the literature and create a Resourceome, i.e. an index of biomedical resources (databases, tools and services) in a semi-automatic way. In this approach we consider only the information provided by the abstracts of relevant papers in the area. Building a comprehensive resource index is the first step towards the development of new methodologies for the automatic or semi-automatic construction of complex biomedical workflows which allow combining several resources to obtain higher-level functionalities.
Research Interests: Artificial Intelligence, Natural Language Processing, Information Management, Database Management Systems, Software, and 9 moreLibrary and Information Studies, Humans, Data acquisition, Bibliographic Databases, Public health systems and services research, Indexation, Data Capture, Unified Medical Language System, and Internet
ACGT is an IST-FP6 Integrated Project, funded by the European Commission, for the development of services to support clinico-genomic trials on cancer in a grid-based environment. In these trials, physicians and researchers need to access... more
ACGT is an IST-FP6 Integrated Project, funded by the European Commission, for the development of services to support clinico-genomic trials on cancer in a grid-based environment. In these trials, physicians and researchers need to access heterogeneous and disparate data sources. Semantic access to these data and the possibility to integrate them seamlessly are issues that ACGT aim to solve.
Research Interests:
Although there is wide information about Biomedical Informatics education and courses in different Websites, information is usually not exhaustive and difficult to update. We propose a new methodology based on information retrieval... more
Although there is wide information about Biomedical Informatics education and courses in different Websites, information is usually not exhaustive and difficult to update. We propose a new methodology based on information retrieval techniques for extracting, indexing and retrieving automatically information about educational offers. A web application has been developed to make available such information in an inventory of courses and educational offers.
Research Interests:
Research Interests:
Following a systems engineering approach we have identified the information system requirements for biomedical collaborative research. We have designed a Service Oriented Architecture following a dynamic and adaptable to change approach,... more
Following a systems engineering approach we have identified the information system requirements for biomedical collaborative research. We have designed a Service Oriented Architecture following a dynamic and adaptable to change approach, using technology and specifications that are being developed in an open way, utilizing industry partnerships and broad consortia such as W3C and the Organization for the Advancement of Structured Information Standards (OASIS), and based on standards and technology that are the foundation of the Internet. The design has been translated in a pilot implementation infrastructure (INBIOMED) that is now been populated with web services for data and images analysis and collaborative management.
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The INFOBIOMED Network of Excellence: Developments for Facilitating Training and Mobility Guillermo de la Calle1, Mario Benito1, Juan Luis Moreno1, and Eva Molero2 1 Biomedical Informatics Group, Artificial Intelligence Lab./Facultad de... more
The INFOBIOMED Network of Excellence: Developments for Facilitating Training and Mobility Guillermo de la Calle1, Mario Benito1, Juan Luis Moreno1, and Eva Molero2 1 Biomedical Informatics Group, Artificial Intelligence Lab./Facultad de Informatica, Universidad Politecnica de ...
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INFOBIOMED is an European Network of Excellence (NoE) funded by the Information Society Directorate-General of the European Commission (EC). A consortium of European organizations from ten different countries is involved within the... more
INFOBIOMED is an European Network of Excellence (NoE) funded by the Information Society Directorate-General of the European Commission (EC). A consortium of European organizations from ten different countries is involved within the network. Four pilots, all related to linking clinical and genomic information, are being carried out. From an informatics perspective, various challenges, related to data integration and mining, are included.
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The Human Genome Project and the explosion of high-throughput data have transformed the areas of molecular and personalized medicine, which are producing a wide range of studies and experimental results and providing new insights for... more
The Human Genome Project and the explosion of high-throughput data have transformed the areas of molecular and personalized medicine, which are producing a wide range of studies and experimental results and providing new insights for developing medical applications. Research in many interdisciplinary fields is resulting in data repositories and computational tools that support a wide diversity of tasks: genome sequencing, genome-wide association studies, analysis of genotype-phenotype interactions, drug toxicity and side effects assessment, prediction of protein interactions and diseases, development of computational models, biomarker discovery, and many others. The authors of the present paper have developed several inventories covering tools, initiatives and studies in different computational fields related to molecular medicine: medical informatics, bioinformatics, clinical informatics and nanoinformatics. With these inventories, created by mining the scientific literature, we have carried out several reviews of these fields, providing researchers with a useful framework to locate, discover, search and integrate resources. In this paper we present an analysis of the state-of-the-art as it relates to computational resources for molecular medicine, based on results compiled in our inventories, as well as results extracted from a systematic review of the literature and other scientific media. The present review is based on the impact of their related publications and the available data and software resources for molecular medicine. It aims to provide information that can be useful to support ongoing research and work to improve diagnostics and therapeutics based on molecular-level insights.