BioABC
Biological Augmented Browsing Connector Explore the ideas of augmented browsing in life sciences-related applications. Key topics: REST based web service accepts LSRN identifiers HTML output according to provided identifier type JavaScript to trigger service execution JS library + CSS Adaptable to any application 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
Semantic Web in GEN2PHEN
GEN2PHEN Semantic Web developments are gaining momentum in the scientific research community: the usage of semantics is finally being considered as a valuable solution to integrate resources and compose services. The Semantic Web can be seen as a set of new ideas regarding the way we think about our data and, subsequently, about our applications. Nowadays, we are used to model and plan our systems around the data we have and the features we want to... Read More
WAVe database model
First stable version of the database model is complete. Upcoming issues: how to crawl the databases to get the variants where is GEN2PHEN lsdb listing how to get variation metadata like publications and so on, will a specific parser for each database be required? develop the final app in C# or Java? C# would be faster… Java stripes? WAVe database model 0.1 Read More
WAVe 1 – 0 Coeus
WAVe has beaten Coeus in a closed match yesterday afternoon… A top-2-bottom perspective should be followed and development in WAVe should kick off ASAP There is no information available on how will coeus and its semantic web developments recover from such a defeat… Read More
Redmine update + Coeus
Redmine update status: running 0.8.7 @ bioserver.ieeta.pt:8000 The problem is in the ruby service (loops between on and off). I don’t know if it’s a versioning problem or a mongrel one… I’ll wait for the next redmine release and try to fix it. Coeus will be the name of the semantic concept management platform I’ll be developing for my PhD. He was one the 12 greek titans, the god of wisdom/knowledge/intelligence. Future... Read More
GEN2PHEN WAVE
Update: WAVe is now live at http://bioinformatics.ua.pt/WAVe Web Analysis of Variome Experiments Web application to deal with variation information. Time to create mockups, define features and talk to the bosses in Leicester. Alternative titles Web Analysis, Assessment Variome, Variation Experiments Read More
GEN2PHEN Web2.0 Conference
Promote conference or workshop focused on Web2.0 and its integration in bioinformatics (User eXperience, usability, interface). It is important to explore this convergence. The idea is not an internation conference, but a closed workshop where specialists in biology and web applications can interact and exchange experiences. Read More
From Genotype to Phenotype
Future perspectives on Data and Service Integration Keynote for the Bioinformatics course of my doctoral programme Open publication - Free publishing - More web2.0 Read More