GSM2803873: Sample 3_Macrophages exposed to UHMWPE particles; Homo sapiens; RNA-Seq
Differentiated macrophages cultured with or without UHMWPE particles were lysed with TRIzol Reagent and harvested for RNA purification. RNA was purified using RNeasy Mini kit columns according to the manufacturer’s instructions, and integrity of samples was assessed by determining 28S/18S ribosomal RNA bands with an Agilent 2100 bioanalyzer. High-quality DNA-free RNA with integrity score > 9.0 was further used for RNA-seq. Each library was generated from 0.5-1 μg pooled RNA of 3 donors (equal quantity) using the TruSeq® Stranded mRNA Sample Preparation Kit. Quality of libraries was examined by Bioanalyzer High sensitivity DNA kit, and then paired-end reads (101 bp) were obtained by Illumina HiSeq 2500, with an average of 69 million reads per sample. Reads were mapped by alignment to human genome (hg19) using TopHat and Bowtie, normalized using the Trimmed Mean of M values (TMM) process, and then annotated using Cufflinks and Cuffdiff (http://cole-trapnell-lab.github.io/cufflinks/cuffdiff/index.html).
GEO
GSM2803873