Fig. 5: Transcriptome-wide profiling of RNA f5C using Aldehyde-reactive probe (ARP)-sequencing.
From: Reactivity-dependent profiling of RNA 5-methylcytidine dioxygenases
a Workflow for ARP sequencing. Fragmented total RNA extracted from WT and ALKBH1 KO cells is incubated with ARP, and labeled RNA is enriched through streptavidin pulldown. Libraries are generated through RT, cDNA circulation, and PCR amplification. b Distribution of enriched ALKBH1-dependent peaks (cDNA value > 10) identified by ARP sequencing. c IGV tracks showing the reads mapped to mt-tRNA-Met in input and IP samples of WT and ALKBH1 KO cells. d Top ALKBH1-dependent f5C-containing tRNA substrates enriched by ARP pulldown. Only peaks with cDNA score >100 and present in the WT sample and absent from the ALKBH1 KO control were considered.
