GSM5866150: Figure2_140521_P1_s01_unstimulated; Homo sapiens; RNA-Seq
Dermal fibroblast: For sequencing preparation, total RNA was harvested from primary cells using the RNeasy Mini Kit (Qiagen) and cDNA was synthesized using the SuperScript III First-Strand Synthesis SuperMix for qRT-PCR (Invitrogen) Whole blood: Paxgene tubes were used to collect RNA from patient and control whole blood. For RNA-Sequencing, first- and second-strand cDNA was synthesized using the TruSeq RNA Sample Preparation Kit (Illumina) and sequenced using the HiSeq 2000 (Illumina). FastQ files were generated using CASAVA 1.8.2 and mapped to hg19 using Tophat 2.1.0. Hemoglobin and intergenic reads were removed using bedtools intersectBed. RPKM values were calculated using Partek GS 6.6.  The RPKM values were transformed to Z-scores by subtracting the mean and dividing by the standard deviation of a set of healthy controls (n=15) PBMC: Peripheral blood mononuclear cells (PBMC) were isolated from whole blood using Ficoll-Paque (Amersham Biosciences) gradient centrifugation standard Illumina mRNA library construction