R1 Supplemental dataset.xlsx

Whole transcriptome analysis of TGF-beta1 treated fibroblasts<br>Methods: RNA was purified using a miRCURY RNA isolation kit (#300110, Exiqon A/S, Vedbaek, Denmark) with an Agilent 2100 Bioanalyzer (Agilant, Santa Clara, CA, USA) used to check RNA integrity. The Illumina TrueSeq mRNA sample preparation kit (Illumina, San Diego, CA, USA) was used to prepare RNA libraries for sequencing on the Illumina HiSEq 2000. Reads were aligned using TopHat2 with the rn6 build of the rat genome. Transcript assembly and differential expression (DE) was by Cufflinks with Refseq mRNAs to guide assembly. Statistically different changes were identified by ANOVA using Partek Flow (Partek, Singapore), as previously described in https://doi.org/10.1016/j.biocel.2017.09.009.

转化生长因子-β1（TGF-beta1）处理的成纤维细胞的全转录组分析
方法：采用miRCURY RNA分离试剂盒（miRCURY RNA isolation kit，货号#300110，丹麦维兹拜克Exiqon A/S公司）纯化总RNA，并使用安捷伦2100生物分析仪（Agilent 2100 Bioanalyzer，美国加利福尼亚州圣克拉拉市安捷伦科技公司）检测RNA完整性。使用Illumina TrueSeq mRNA样本制备试剂盒（Illumina TrueSeq mRNA sample preparation kit，美国加利福尼亚州圣地亚哥Illumina公司）构建RNA测序文库，随后在Illumina HiSEq 2000测序平台上完成测序。采用TopHat2工具，以大鼠基因组rn6版本作为参考基因组进行测序reads的比对分析。转录本组装与差异表达（DE）分析通过Cufflinks工具完成，以Refseq mRNA序列作为参考引导转录本组装。采用Partek Flow软件通过方差分析（ANOVA）鉴定具有统计学显著性的表达差异，具体分析流程参考此前发表于https://doi.org/10.1016/j.biocel.2017.09.009的研究。