Automated Genomic DNA QC Ensures High Quality Data from Downstream Workflows
Poster Nov 05, 2012
Arunkumar Padmanaban, Ruediger Salowsky, Delphine Rabiller and Donna McDade Walker
The success of several genomics study depends primarily on the quality of starting material, which in most cases is the genomic DNA. The quality and quantity of the extracted genomic DNA affects the downstream applications like microarray studies, library constructions and gene expression studies. Since, these are expensive and time consuming applications the QC of the genomic DNA has become a mandatory at several stages of the experiment. The integrity of genomic DNA was traditionally studied using Agarose gel, which is more manual, cumbersome and involves exposure to hazardous chemicals like ethidium bromide.
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.