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What's important in Low Cell ChIP Seq >10,000 Cells ?
Hi al!
I have been doing some research on the possible methods of low cell ChIP-seq on >10,000 cells and narrowed my options down to ETHANol's protocol or Biooscientific's NEXTflex kit.
After querying with the Biooscientific's distributor for the protocol I realised that the low input ChIP-seq kit from Biooscientific is only for the sample preparation of ChIP DNA and not the actual immunoprecipitation.
As I am new to ChIP-seq this led me to the question - is the only modification in low cell number ChIP-seq to do with library preparation? I have read some papers that do amplification of the DNA prior to sample preparation (LinDA) but I'm not so keen on that.
So assuming that I have a good & robust sample preparation technique for low input DNA will I be OK in just using any ChIP kit or are there modifications I can actually make to the chromatin immunoprecipitation to make it better?
I'm interested in doing natve ChIP-seq on about 10,000 hematopoietic stem cells. My fragmentation method of choice is MNase.
Thanks for your help!
I have been doing some research on the possible methods of low cell ChIP-seq on >10,000 cells and narrowed my options down to ETHANol's protocol or Biooscientific's NEXTflex kit.
After querying with the Biooscientific's distributor for the protocol I realised that the low input ChIP-seq kit from Biooscientific is only for the sample preparation of ChIP DNA and not the actual immunoprecipitation.
As I am new to ChIP-seq this led me to the question - is the only modification in low cell number ChIP-seq to do with library preparation? I have read some papers that do amplification of the DNA prior to sample preparation (LinDA) but I'm not so keen on that.
So assuming that I have a good & robust sample preparation technique for low input DNA will I be OK in just using any ChIP kit or are there modifications I can actually make to the chromatin immunoprecipitation to make it better?
I'm interested in doing natve ChIP-seq on about 10,000 hematopoietic stem cells. My fragmentation method of choice is MNase.
Thanks for your help!