rptDB; a prototype Affymetrix .rpt QC tool
Poster Sep 22, 2005
James Hadfield, Marielle Vigouroux
Affymetrix analysis results in the generation of large and complex data sets which need extensive downstream analysis to determine results of biological significance. Users can benefit from a careful QC of their data before beginning analysis to remove individual chips that may adversely affect the final interpretation.
rptDB is a prototype database for the analysis of Affymetrix expression report (.rpt) files. Report files are widely used to QC raw data after hyb, scan and .cel file generation. Only %Present calls, Scale Factors and 3':5' ratios of housekeeping genes are generally used, but there are many other metrics that may also be of importance for QC analysis.
Characterization of a Type 2 diabetes-associated islet-specific enhancer cluster in STARD10 by genome editing of EndoC-βH1 cellsPoster
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
P450 Induction in Cryopreserved Hepatocytes from PXR and CAR Nuclear Receptor Knock-out RatsPoster
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
Psychiatric Risk Gene Cacna1c and Early Life Stress: Potential Gene-Environment interactions?Poster
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.
International Conference on Neurooncology and Neurosurgery
Sep 17 - Sep 18, 2018