Allows users to do a systematical search for the natural antisense transcripts (NATs) in the organisms without reference genomes. NATpipe is a pipeline enables users to identify the phase-distributed nat-siRNA loci within the perfectly annealed regions of the NAT pairs based on sRNA and degradome sequencing. This application also performs strand-specific mapping of the degradome signatures onto the NATs with phased nat-siRNA loci if users have degradome-seq data.
Identifies cis-natural antisense transcripts (cis-NATs) pairs using strand-specific RNA sequencing (ssRNA-seq) data. NASTIseq provides an R package based on model comparison for characterizing the mechanism by which cis-NAT pairs regulate gene expression. This method first calculates a score based on Bayesian information criterion (BIC), and then identifies candidate cis-NAT pairs that have small intergenic distances and are on opposite strands in the genome.