ChIP vs EMSA

Discussion of all aspects of biological molecules, biochemical processes and laboratory procedures in the field.

Moderators: honeev, Leonid, amiradm, BioTeam

Post Reply
konstantin
Garter
Garter
Posts: 37
Joined: Thu Nov 23, 2006 9:24 am

ChIP vs EMSA

Post by konstantin » Fri Jan 11, 2008 4:30 am

both ChIP and EMSA are dedicated to check whether protein binds to DNA or not....
Can somebody explain what difference between these two experiments?

User avatar
MichaelXY
King Cobra
King Cobra
Posts: 885
Joined: Fri Jun 15, 2007 7:03 pm
Location: San Diego, Ca

Post by MichaelXY » Fri Jan 11, 2008 7:04 am

I just googled this and found lots of info.

konstantin
Garter
Garter
Posts: 37
Joined: Thu Nov 23, 2006 9:24 am

Post by konstantin » Mon Jan 14, 2008 2:57 am

may be, experimental prosseces are different, but in my opinion, the meaning is same.... both experiments check interaction of proteins (transcription factors) with DNA. does not
it?

User avatar
mith
Inland Taipan
Inland Taipan
Posts: 5345
Joined: Thu Jan 20, 2005 8:14 pm
Location: Nashville, TN
Contact:

Post by mith » Mon Jan 14, 2008 3:58 am

I think ChIP is more concerned with where the protein is bound(the DNA) whereas EMSA is more concerned about the protein complex. I'm not sure if you can release the protein from the antibody after it's bound.
Living one day at a time;
Enjoying one moment at a time;
Accepting hardships as the pathway to peace;
~Niebuhr

User avatar
MichaelXY
King Cobra
King Cobra
Posts: 885
Joined: Fri Jun 15, 2007 7:03 pm
Location: San Diego, Ca

Re: ChIP vs EMSA

Post by MichaelXY » Mon Jan 14, 2008 4:23 am

Here is a link with some tech info on EMSA

http://www.piercenet.com/Proteomics/bro ... F#techtips

User avatar
MichaelXY
King Cobra
King Cobra
Posts: 885
Joined: Fri Jun 15, 2007 7:03 pm
Location: San Diego, Ca

Post by MichaelXY » Mon Jan 14, 2008 7:52 pm


johnd2008
Garter
Garter
Posts: 1
Joined: Sun Jul 13, 2008 4:51 am

Re: ChIP vs EMSA

Post by johnd2008 » Sun Jul 13, 2008 5:05 am

I think CHIP is used for In Vivo study protein-DNA interaction in whole genome setting whereas EMSA is used for in vitro protein-DNA interaction with in vitro synthesied oligo DNA and recomninant protein or nuclear extract. EMSA can be used to confirm specific DNA binding site for a transcription factor whereas CHIP resolution won't be high in that CHIP can only show a protein associate with a genomic DNA (>200 bp). EMSA can be used to identify a novel transcription factor binding site. CHIP-on-chip can also be used to identify genome-wide transcription factor target genes. EMSA can be easily done in a couple of hours whereas old fasion CHIP requires 2 to 3 days work. Recent advance in fast Chromatin IP kit also proves CHIP can be done in 4 hours as I googled and found a fast Chromatin IP kit from AmericanGeneTech.com can do just as fast as EMSA.

Istria
Garter
Garter
Posts: 9
Joined: Sat Jul 26, 2008 8:39 pm

Re: ChIP vs EMSA

Post by Istria » Sat Jul 26, 2008 9:01 pm

konstantin wrote:both ChIP and EMSA are dedicated to check whether protein binds to DNA or not....
Can somebody explain what difference between these two experiments?

EMSA - Naked DNA binding - Not very reliable
ChIP - Chromatin binding - If works well quite quite reliable.

Post Reply

Who is online

Users browsing this forum: No registered users and 7 guests