KDM4B regulates alternative splicing in castration resistant prostate cancer

We studied the alternative splicing function of KDM4B and found that KDM4B can act as a bona fide trans-acting splicing factor that binds RNA and signal-responsive scaffold protein that binds spliceosome. We performed RNA-seq for LNCaP cells stably transfected with vector or Flag-KDM4B to identify genomewide alternative splicing events. In our project, we sequence 6 samples using Illumina Hiseq platform, and on average we generated about 6.59 Gb bases from each sample. After mapping sequenced reads to reference genome and reconstruct transcripts,we finally get 13,160 novel transcripts from all samples, of this, 3,282 are previously unknown splicing event for known gene, 173 are novel coding transcripts without any known features, and the remaining 9,705 are long noncoding RNA .