Comprehensive genome annotation of the model ciliate Tetrahymena thermophila by in-depth epigenetic and transcriptomic profiling

To comprehensively annotate genes of Tetrahymena macronuclear genome, we collected extensive transcriptomic data spanning various cell stages. In addition, to better ascertain the transcripts orientation and the transcription start/end sites, we incorporated strand-specific transcriptomic data and epigenetic data including the histone modification H3 lysine 4 tri-methylation (H3K4me3), the histone variant H2A.Z, nucleosome positioning, N6-methyldeoxyadenine (6mA), and chromatin accessibility.