We developed methods to identify differential alternative splicing events for species with or without reference genome.
We used degradome/smallRNA sequencing to identify the miRNA target sites in plant. We recently started to performance small RNAs/RNA-seq to investigate DCL-dependent siRNAs on regulation of gene expression.
Both small RNAs and alternative splicing are important post-transcriptional regulation mechanisms in most eukaryotes. Our long term project focus on the interplay between small RNAs and splicing regulation in planta.
The function of small RNA
Iterplay of splicing & small RNA
We are pleasure to release out first version of ASmiRdb: the interplay between miRNA and alternative splicing in plant. The database was accompanied by easy-to-use web query interfaces for data visualization and downstream analysis. Especially, the forest genomics community also can submit own dataset to the web service to search for the small RNA target sites locating at AS region.
We are pleasure to release out first version of PRAPI, which a one-stop solution for Iso-Seq analysis of analyze alternative transcription initiation (ATI), alternative splicing (AS), alternative cleavage and polyadenylation (APA), natural antisense transcripts (NAT), and circular RNAs (circRNAs) comprehensively.