What genes can be used to validate H3K27me3-ChIP
Posted 29 June 2009 - 10:27 AM
Posted 29 June 2009 - 12:13 PM
One reply in this forum or other ChIP place did mention that in -2007 nature
papers addressed H3K27me3 as Mark;
Sorry, for the moment , I cannot remember these papers (authors/ titles);
maybe later. But Just for as neg control withH3K27me3 (i.e. silencing ) ,
for sure , one guy used H3K27me3 on GAPDH promoter.
Posted 29 June 2009 - 12:45 PM
Posted 29 June 2009 - 04:56 PM
I am not sure , but have a look at , Tarjei S. Mikkelsen1,2, ....Bradley E. Bernstein1,4,6* , 2007 nature
Posted 02 July 2009 - 01:01 AM
We use Gsx2 (a gene involved in the brain) as our positive control. What cells are you using?
Posted 02 July 2009 - 04:56 AM
Say, CD2 is silent in B cells. Can I just use CD2 as a positive control in the validation of H3K27me3-ChIP? If yes, shall I just amplify the core promoter region (spanning the transcriptional start site) of CD2 gene?
Posted 02 July 2009 - 04:49 PM
Rhodopsin has worked well for us in multiple cell types.
Posted 14 July 2009 - 04:26 PM
I use SFRP4 - I used it first in a primary cell which hasn't been studied before and it worked really well, it is from:
Schlesinger, Y., et al., Polycomb-mediated methylation on Lys27 of histone H3 pre-marks genes for de novo methylation in cancer. Nature Genetics, 2007. 39(2): p. 232-236 and Sen, G., D. Webster, and D. Barragan, Control of differentiation in a self-renewing mammalian tissue by the histone demethylase JMJD3. Genes and Development, 2008. 22: p. 1865-1870.
Think the supplemental data from Sen has primer sequence.
Posted 03 June 2011 - 06:31 AM