FiT-Seq
FiT-Seq
FiT-seq is a method to extract soluble chromatin from FFPE tissue samples for the detection of histone-binding sites. The distinguishing feature of this method is a proteinase K digestion step to reverse the effects of heavily crosslinked fixed chromatin in FFPE tissues, before the sonication step.
Pros:
- Works on FFPE samples
- Higher resolution and sensitivity than pathology tissue chromatin immunoprecipitation (PAT-ChIP)
Cons:
- Not tested in other laboratories
- Sonication may introduce sequence bias1
- FiT-Seq: Cejas P., Li L., O'Neill N. K., Duarte M., Rao P., et al. (2016) Chromatin immunoprecipitation from fixed clinical tissues reveals tumor-specific enhancer profiles. Nat Med 22: 685-691
- Teytelman L., Ozaydin B., Zill O., Lefrancois P., Snyder M., et al. (2009) Impact of chromatin structures on DNA processing for genomic analyses. PLoS One 4: e6700