When we created IntOGen we had the motivation to convert it into a discovery tool for cancer researchers and a resource that integrates multidimensional OncoGenomics Data. We have [...]

Have you ever heard of SVG? Scalable Vector Graphics (SVG) is an open standard to design images and graphics that can be scaled to any size without loosing [...]

On 21-22 June our group is organizing a course open to all reserachers who share our interest on Genomics. It will be similar to the one we gave [...]

About three years ago I started developing Gitools as an internal tool for people in the lab. We needed it to explore the results generated in IntOGen. It [...]

Yes, the Ensembl-variation 62 is out, and Condel has been included in its API. From this version on, the effects of all non-synonymous Single Nucleotide Variants (SNVs) may [...]

The other day I downloaded the cancer-affected Gene Ontology (GO) terms from IntOGen for up- and down-regulation via it's Biomart interface for a few tissues. Since was only interested in the GO Cell Compartment terms, so I directly added a filter file containing all the GO CC Terms as a filter for the Biomart export. So then... what do you do when you have a list of GO terms? Already if it is only 100 GO terms, it is quite hard to get an idea which are the affected compartments. To understand better you have to identify the more general terms that are affected. Here I explain quickly how I solved this problem and share it with you.

Our article on a Consensus deleteriousness score of missense Single Nucleotide Variants was published yesterday online and will be included in the April issue of the American Journal [...]

In this series of posts I am showing how expression data can be analyzed using Gitools. In a previous post I explained how to do pathway enrichment analysis. [...]

After preparing some tutorials for our software, I thought it would be useful to show how basic analyses on microarray data can be carried out using Gitools. For [...]

A recent special by the Nature publishing group talks about the topic Cities and Science. A very interesting set of articles that explores the effect of the urbanization [...]