iCANC-seq: integrated profiling of Chromatin Accessibility and phsically separated Nuclear and Cytoplasmic mRNA sequencing of low sample
iCANC-seq: integrated profiling of Chromatin Accessibility and phsically separated Nuclear and Cytoplasmic mRNA sequencing of low sample
by D. Zhu, S. T. Jakobsen, and K. Natarajan
In this work, we presented a novel method, iCANC-seq, for integrated profiling for the first time of Chromatin Accessibility alongside physically separated Nuclear and Cytoplasmic mRNA simultaneously from the same sample. It allows for the study of epigenetic regulation, RNA expression, and nuclear RNA retention in an unbiased manner. We applid the iCANC-seq to explore differentiation processes of stem cells with low input cell numbers ranging from 50k down to single cells. The results showed that highly active promoters can yield both enhanced and repressed downstream gene expression, for the later of which we supposed other motifs are requied while no motifs were recovered. Integration of the three-layered cellular information further indicated that transcripts trapped and degraded in the nucleus is an essential regulatory mechanism to suppress differentiation.
