Avoiding pitfalls in gene (co)expression meta-analysis

Avoiding pitfalls in gene (co)expression meta-analysis.

Differential gene expression analysis between healthy and diseased groups is a widely used approach to understand the molecular underpinnings of disease. A wide variety of experimental and bioinformatics techniques are available for this type of analysis, yet their impact on the reliability of the results has not been systematically studied. We performed a large scale comparative analysis of cl...

Pitfalls of meta-analysis.

Candidate gene studies in respiratory disease: avoiding the pitfalls.

Avoiding pitfalls in L1-regularised inference of gene networks.

Statistical regularisation methods such as LASSO and related L1 regularised regression methods are commonly used to construct models of gene regulatory networks. Although they can theoretically infer the correct network structure, they have been shown in practice to make errors, i.e. leave out existing links and include non-existing links. We show that L1 regularisation methods typically produc...

Avoiding OCL specification pitfalls

This paper discusses about teaching software modeling by using OCL specifications, in the context in which the web represents the main source of information. The raise of the interest for models induced a higher need for clear and complete specifications. In case of models specified by means of MOF-based languages, adding OCL constraints proved to be an interesting answer to this need. Several ...