ChiP-Seq experiment 101

sphil · 08-27-2013, 01:54 AM

Hey,

using ChiP-Seq one can find DNA-Binding sites etc. Therefore you have to know the protein binding to the promoter region (right?). Is there any indication of how many Proteins one can tag? So, is there a maximum of Proteins to survey at once?

Thanks,

phil

dpryan · 08-27-2013, 08:14 AM

Well, typically you do ChIP-seq by performing an IP with an antibody raised against your protein of interest. So then you're just doing one protein at a time (unless your antibody targets a protein complex, in which case you're getting whatever exactly the antibody is specific for). I suppose you could also epitope tag a bunch of proteins and then use the appropriate antibody to get all of them, but I expect that'd be much more work.

crazyhottommy · 08-27-2013, 02:05 PM

I do regular ChIP a lot. and usually, you can only look at one Transcription factor at once.

sphil · 08-28-2013, 01:15 AM

Thank you!

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
RNA-seq Analysis 101	thinkRNA	Bioinformatics	2	08-28-2013 08:28 PM
peaks graph for Chip-seq experiment	kushald	Bioinformatics	1	05-08-2013 02:54 AM
Tools to plot strand cross correlation for a ChIP-seq experiment	liz_is	Bioinformatics	2	11-28-2012 02:44 AM
ChIP-Seq: ChIP-Array: combinatory analysis of ChIP-seq/chip and microarray gene expre	Newsbot!	Literature Watch	0	05-19-2011 03:50 AM
expected percentage of mapped reads in chip-seq experiment	andreiafonseca	General	16	03-25-2011 06:14 AM

08-27-2013, 01:54 AM	#1
sphil Senior Member Location: Stuttgart, Germany Join Date: Apr 2010 Posts: 192	ChiP-Seq experiment 101 Hey, using ChiP-Seq one can find DNA-Binding sites etc. Therefore you have to know the protein binding to the promoter region (right?). Is there any indication of how many Proteins one can tag? So, is there a maximum of Proteins to survey at once? Thanks, phil

08-27-2013, 08:14 AM	#2
dpryan Devon Ryan Location: Freiburg, Germany Join Date: Jul 2011 Posts: 3,480	Well, typically you do ChIP-seq by performing an IP with an antibody raised against your protein of interest. So then you're just doing one protein at a time (unless your antibody targets a protein complex, in which case you're getting whatever exactly the antibody is specific for). I suppose you could also epitope tag a bunch of proteins and then use the appropriate antibody to get all of them, but I expect that'd be much more work.

08-27-2013, 02:05 PM	#3
crazyhottommy Senior Member Location: Gainesville Join Date: Apr 2012 Posts: 140	I do regular ChIP a lot. and usually, you can only look at one Transcription factor at once.

08-28-2013, 01:15 AM	#4
sphil Senior Member Location: Stuttgart, Germany Join Date: Apr 2010 Posts: 192	Thank you!