GSM9262230: Rottlerin treated replicate; Homo sapiens; RNA-Seq
Whole islet cultures were lysed using RLT-buffer then RNA was extracted using the Qiagen Rneasy extraction kit (Cat. No. 74104). Admera Health received this RNA and performed the following processing and library prep. Library preparation was performed with KAPA RNA HyperPrep Kit with RiboErase (HMR). Sequencing was performed using  for 30M PE reads in each direction. FastQC (version v0.11.8) was applied to check the quality of raw reads. Trimmomatic (version v0.38) was applied to cut adaptors and trim low-quality bases with default setting. STAR Aligner version 2.7.1a was used to align the reads. Picard tools (version 2.20.4) was applied to mark duplicates of mapping. The StringTie version 2.0.4 was used to assemble the RNA-Seq alignments into potential transcripts. The featureCounts (version 1.6.0)/HTSeq was used to count mapped reads for genomic features such as genes, exons, promoter, gene bodies, genomic bins and chromosomal locations.