RNA Sequencing Facilitates Quantitative Analysis of differentially expressed genes after PTBP1 knockdown in human erythroid cells

Purpose: The goals of this study are to determine possible downstream targets of PTBP1 on day8 of erythroid differentiation with or without PTBP1 knockdown. Methods:gene expression profiling with or without PTBP1 knockdown in differentiated erythroblasts at day8 were generated by deep sequencing, induplicate, using Illumina GAIIx.The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. qRT–PCR validation was performed using TaqMan and SYBR Green assays. Conclusions: heme metabolism genes were down-regulated after PTBP1 knockdown during erythroid differentiation mRNA profiles of day8 erythroid cells with or without PTBP1knockdown were generated by deep sequencing, in duplicate, using Illumina GAIIx.