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ChIP-seq: Minimum number of cells


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#1 Rsm

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Posted 13 August 2009 - 06:44 PM

Hi there,
I would like to perform a ChIP-seq on primary cells (FACS sorted). However, I can get only a limited number of cells per mouse (~3000/mouse). So I'd end up with 20,000 cells, is that enough for ChIP-seq? How about reproducibility? I read the paper from the Myers' lab, they used 50ng DNA and amplified it. 20,000 cells should give me ~200ng DNA, that might work. Has anyone experience with small cell numbers for ChIP-seq? Is there a protocol or article describing ChIP-seq on small number of sorted cells?
Thanks a lot!
Cheers,
Minna
I got soul, but I'm not a soldier

#2 TracyDuke

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Posted 17 August 2009 - 01:58 PM

I have never tried ChIPing using less than 1 million cells but you can check out this paper: Genome-Scale ChIP-chip analysis using 10,000 human cells. Luis G. Acevedo et al. http://www.pubmedcen...bmedid=18251256

#3 cellcounter

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Posted 17 August 2009 - 02:07 PM

I have never tried ChIPing using less than 1 million cells but you can check out this paper: Genome-Scale ChIP-chip analysis using 10,000 human cells. Luis G. Acevedo et al. http://www.pubmedcen...bmedid=18251256

Good paper! Thanks. I was also thinking of doing Chip-seq on limited supply of cells.

#4 Rsm

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Posted 20 August 2009 - 09:10 PM

Excellent paper!
That was exactly what I was looking for!
(even though they are using cultured cells :lol: )...
Thanks a lot!

Cheers,
Minna
I got soul, but I'm not a soldier




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