Programming in the Life Sciences #1: a six day course

Our department will soon start the course Programming in the Life Sciences for a group of some 10 students from the Maastricht Science Programme. This is the first time we give this course, and over the next weeks I will be blogging about this course. First, some information. These are the goals, to use programming to: 2 minute read

New Paper: "The ChEMBL database as linked open data"

2 minute read

CiteULike adds a HTML widget to embed citations

 Spjuth, O.; Carlsson, L.; Alvarsson, J.; Georgiev, V.; Willighagen, E.; Eklund, M. Current Topics in Medicinal Chemistry 2012, 12, 1980-1986. less than 1 minute read

Dereferencable InChIs: OpenMolecules RDF

About four and a half years ago, I started OpenMolecules RDF, a spin off from Chemical blogspace (Cb, which is still up and running thanks to Peter Maas!) where I started using InChIs in URIs . My interest came from the dereferencability, the ability to take an InChI and find information about the chemical structure representated by it. Because information about anything is scattered around the internet, and we need something decentralized. Moreover, at the time searching of InChIs with search engines like Google did not work well at all: InChIs were tokenized in inconvenient ways. 1 minute read

"Emerging practices for mapping and linking life sciences data using RDF"

The “Emerging practices for mapping and linking life sciences data using RDF” (doi:10.1016/j.websem.2012.02.003) is now available online, where I contributed a section on the original workflow for creating ChEMBL triples, and contributed to the section about open licensing, referring to CCZero and the Panton Principles. Happy reading! less than 1 minute read

Visualizing metabolite fluxes on WikiPathways pathways using a PathVisio plugin

Visualizing metabolite fluxes on WikiPathways pathways using a PathVisio plugin 1 minute read

ChEMBL 13 as RDF

Update: this work is now described in this paper . less than 1 minute read