Monthly Archives: January 2011

Downloading PubMed Articles

The PubMed Central Open Access archive, contains the full text of a subset of the articles available through PubMed.  It’s very useful for text mining.  In this blog entry, I’ll show you how to search for and download the XML-encoded … Continue reading

Posted in Bioinformatics, Informatics, Uncategorized | Tagged , , , , | 2 Comments

BioGroovy and the Semantic Web

Recently, I found myself putting together a presentation on BioGroovy.  One of the key features that I’ve been taking advantage of is the ability to use BioGroovy models as Grails domain objects.  This makes it possible to easily download and … Continue reading

Posted in Bioinformatics, Informatics, Semantic Web | Tagged , , , , | Leave a comment

MindMapping OMIM Files with BioGroovy

Several years ago a friend of mine introduced me to mindmaps as a tool for helping people visualize and link concepts (see below). The Online Mendelian Inheritance In Man (OMIM) database, created by Johns Hopkins University contains information on the … Continue reading

Posted in Informatics | Tagged , , , | 5 Comments