House keeping gene copy number - (Dec/01/2008 )
As I am going to do my first time real time PCR, when I try to pick a house keeping gene. Some one told me that the number of copy of house keeping genes varies in different cell line and tissue. May I ask does anyone know a website that I could search all listes house keeping genes (such as b-actin, GAPDH) with their copy numbers and differenital difference among different cell line? Thanks
It would be interesting if someone knows of such publication/database.
BioGPS is maybe useful. this link is with ACTB in human tissues. I think the expression values are generated with microarray data.
Maybe you shouldn't use ACTB to compare cardiac myocytes ans skeletal muscle
The Genevestigator Team has released a new tool called RefGenes that allows you to search, from a genome-wide set of genes, which genes are most stable in the conditions that you choose. Its database contains data from more than 20,000 arrays, including several hundred from cell line samples. You can ask the tool to look for genes stable across a selected set of cell lines. Genevestigator also allows you to choose a set of these genes and check how they are expressed in different tissues and how they respond to different conditions.
The tool is freely available for academic users, you just have to create your account in Genevestigator. The website is http://www.genevestigator.com. To access the RefGenes tool, click on the "Start analysis tool" button, then once the Java application runs, go to the Biomarker Search section and RefGenes will be visible (first tab).