Gene List Significance Index (GLSI) improves our method High Performance Chip Data Analysis dramatically - Quantifying the quality of different lists of analyzed significant genes
Poster Dec 01, 2009
Our gene expression profiling strategy High Performance Chip Data Analysis (HPCDA) was improved with a method for quantifying the quality of different gene lists (GLs) with the new Gene List Significance Index (GLSI). With GLSI it is possible to decide which of two different extracted GLs has highest fraction of true positives, of high fold change or low p-value genes. With GLSI we could empirically optimize HPCDA-Score for ranking genes.
Genome-wide association studies (GWAS) have identified more than 100 genetic loci associated with type 2 diabetes. The majority of these are located in the intergenic or intragenic regions suggesting that the implicated variants may alter chromatin conformation. This, in turn, is likely to influence the expression of nearby or more remotely located genes to alter beta cell function. At present, however, detailed molecular and functional analyses are still lacking for most of these variants. We recently analysed one of these loci and mapped five causal variants in an islet-specific enhancer cluster within the STARD10 gene locus. Here, we aimed to understand how these causal variants influence b-cell function by alteration of the chromatin structure of enhancer clusterREAD MORE
The nuclear receptors pregnane X receptor (PXR) and constitutive androstane receptor (CAR) are closely related transcription factors that regulate the expression of phase I (cytochrome P450s), phase II metabolizing enzymes and transporter genes in response to xenobiotics, including prescription drugs.READ MORE
Early life stress (ELS) is highly associated with development of psychopathology
and mood disorders in adulthood. Genetic studies have identified variation in the gene calcium voltage-gated channel subunit alpha1C (CACNA1C) to increase risk for several psychiatric disorders. This poster assessed the expression of Cacna1c following prepubertal stress.