ATAC-Seq cell preparation from Tissue

[paramita7]

Hi,
I am a newbie in the field of ATAC-Seq. I am trying to start the protocol but my samples are Fresh/Frozen Tissue, not cell. I am having trouble deciding on how to dissociate cells from the tissue sample as which enzyme to use and how long. If anyone else is doing it from Tissues and give me some idea that will be great. Thanks..

[liulongqi]

Hi,
I am also trying frozen tissues for ATAC and I found it generates high noise signal using standard protocol. I am really suffering from this. Do you mind to share you progress with me? thanks in advance.

[klebsiella]

Hi,

Me too, I need to do ATAC-seq on flash frozen tissue samples (-80). Any advice and/or a good protocol to suggest ?

I came across the following info about a couple of protocols (search for ATAC), but didn't try them yet:

https://www.encodeproject.org/documents/

Please share information in case,
Best,

[paramita7]

atacseq from frozen tissue

Hello klebsiella, I am going to try the ENCODE protocol within few days. will update then. Mean time if you did try it already let me know how it went. Thanks,

[klebsiella]

Dear Paramita7,
Many thanks for your reply. I look forward to the outcome. I didn't start doing the experiments yet. However, I came across this published report (
https://www.ncbi.nlm.nih.gov/pubmed/27146274) where they show that flash-frozen samples do not show signal in flash-frozen sample in contrast to cryopreserved samples.

Hope this will help and again, I am looking forward.

Best