discontinue ruxolitinib sample 1
The library was generated and analyzed through medgenome. Per medgenome: The fastq file was used to check base quality score distribution, sequence quality score distribution, average base content/read, GC distribution, PCR amplification issues, check for over-represented sequences, and adaptor trimming. Baed on this quality report, the sequence read was trimmed and low aulity sequence reads were excluded. Data quality check was performed with FastQC (v0.11.8) and adapter trimming with fasq-mcf program (v1.05) and cutadapt (v2.5). The reads were aligned with STAR (v2.7.3a) and raw reads were estimated with Htseq (v0.11.2). Read counts were normalized with DESeq2 and the aligned reads were sued for estimating expression of genes with cufflinkes (v2.2.1)