GEN2PHEN
The GEN2PHEN project aims to unify human and model organism genetic variation databases towards increasingly holistic views into Genotype-To-Phenotype (G2P) data, and to link this system into other biomedical knowledge sources via genome browser functionality. The project will establish the technological building-blocks needed for the evolution of today’s diverse G2P databases into a future seamless G2P biomedical knowledge environment, by the projects... Read More
EU-ADR
The EU-ADR project aims to develop an innovative computerized system to detect adverse drug reactions (ADRs), supplementing spontaneous reporting systems. To achieve this objective, EU-ADR will exploit clinical data from electronic healthcare records (EHRs) of over 30 million patients from several European countries (The Netherlands, Denmark, United Kingdom, and Italy). In this project a variety of text mining, epidemiological and other computational... Read More
RECOMB2010
WAVe at RECOMB2010 Great event, despite the overloaded focus on molecular biology. Definitely not my most domain. Great discussion on Genomics and Personalized Medicine. DiseaseCard will fit into this problem! Must write on this later. As for the WAVe poster, it was terribly localized! A dark corner… basically only my neighbors got convinced and liked my explanation. One even congratulated me for the look, which resulted in a short discussion... Read More
An Integrated View for Human Variome Information
Pedro Lopes and José Luís Oliveira 14th International Conference on Research in Computational Molecular Biology (RECOMB2010) Lisbon, Portugal, August 2010 Read More
Improving cross mapping in biomedical databases
Joel Arrais, João Pereira, Pedro Lopes, Sérgio Matos, and José Luís Oliveira 4th International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2010) Guimarães, Portugal, June 2010 Read More
Intelligent Data Gathering for Bioinformatics
Update: merged with ConceptBrowser from Sérgio Matos. New application that will search results for user submitted queries in various search engines (Google, Yahoo, Bing…). A map is built from the results, showing relations between pages, what the pages contain, what the pages refers to… and then, show information about the pages in an outstanding workspace. For instance, searching for BRCA2 in Google provides an immense amount of information... Read More
WAVe
2010 begun with a new challenge: plan and develop, as fast as possible, a simple variant integration application based on DiseaseCard‘s navigation concept. The idea was to reach GEN2PHEN‘s goals with a new DiseaseCard-like application focused on integrating LSDBs (no one does it!) and variants contained in those LSDBs. Moreover, relevant gene-related information (pathways, proteins…) should be provided in the elegant navigation... Read More
JB2009
Last week I have attended the Jornadas de Bioinformatica 2009 conference. Too much bio for my informatics knowledge, but it was very interesting. Search for: - Miguel Vásquez - José Maria González - UMI (Minho) - KDBIO (INESC Lisboa) Read More
DynamicFlow: A Client-Side Workflow Management System
Pedro Lopes, Joel Arrais and José Luís Oliveira 3rd International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB2009), Springer Salamanca, Spain, June 2009 [http://dx.doi.org/10.1007/978-3-642-02481-8_167] Read More
Book
How about writing a book related to bioinformatics? The PhD thesis result could be a book… Or we could just create a book to use as an introduction to bioinformatics and biomedicine to whoever joins our research group: Data integration info Warehousing Genetics Text-mining Databases Web services Semantics Ontologies Medical imaging … Read More