Disease Ontology (DO) provides an open source ontology for the integration of biomedical data that is associated with human disease. DO analysis can lead to interesting discoveries that deserve further clinical investigation. DOSE was designed for semantic similarity measure and enrichment analysis. Read More: 619 Words Totally [Read more...]

In recently years, high-throughput experimental techniques such as microarray and mass spectrometry can identify many lists of genes and gene products. The most widely used strategy for high-throughput data analysis is to identify different gene clusters based on their expression profiles. Another commonly used approach is to annotate these genes ... [Read more...]

I just figure out the way to query UTR sequence from ensembl by biomart tool. It is very simple compare with using bioperl to parse gbk file to extract UTR sequence. Read More: 232 Words Totally [Read more...]

I started to develop GOSemSim package two years ago when I was not quite familiar with R. I am very happy to see that someone use it and found it helpful. I try to learn S4 and redesign GOSemSim with S4 classes and methods in the pass two weeks, and ... [Read more...]

hyperGTest compute Hypergeomtric p-values for over or under-representation of each GO term in the specified category among the specified gene set. *geneSample* was used as an example. Read More: 1329 Words Totally [Read more...]

It is very common to cluster genes based on their expression profiles, and also very common to integrate Gene Ontology to observe the distribution of biological processes, molecular functions and cellular components for a given gene list. But, what if the two in combination? The Gene Ontology distributions across a ... [Read more...]