RNA-seq analysis of colorectal cancer cell lines HT29-POLR1D-silenced and SW480-POLR1D-silenced. RNA-seq analysis of colorectal cancer cell lines HT29-POLR1D-silenced and SW480-POLR1D-silenced

Purpose: To explore the effect of POLR1D on colorectal cancer cell lines HT29 and SW480. Methods: Whole transcriptome profiles of POLR1D knock down and AllStars Negative Control transfected colorectal cancer cell line (ie. HT29 and SW480) were generated by whole transcriptome sequencing, in replicate, using the Illumina NextSeq 550. The sequence reads that passed quality filters were analyzed at the gene level with Kallisto followed by DESeq2. Results: 45 genes showed consistent change after silencing of POLR1D, which included 2 genes that are well-known to be involved in the cell growth-related pathway, ie. VEGFA and EREG. Conclusions: POLR1D can infulence cell proliferation through VEGFA and EREG related pathway. Overall design: Whole transcriptome profiles of POLR1D-silenced and AllStars Negative Control transfected colorectal cancer cell lines HT29 and SW480 in replicate, using Illumina NextSeq 550.

研究目的：探究POLR1D对结直肠癌细胞系HT29与SW480的影响。
实验方法：采用Illumina NextSeq 550测序平台，对POLR1D敲低组与转染AllStars阴性对照的结直肠癌细胞系HT29、SW480进行重复实验，通过全转录组测序获取其全转录组表达谱；对通过质量过滤的测序读段，在基因水平上先使用Kallisto进行分析，随后结合DESeq2完成后续数据解析。
实验结果：POLR1D沉默后，共有45个基因出现一致性表达变化，其中包含2个已知参与细胞生长相关通路的基因，即血管内皮生长因子A（VEGFA）与上皮调节蛋白（EREG）。
研究结论：POLR1D可通过VEGFA与EREG相关通路影响细胞增殖。
整体实验设计：采用Illumina NextSeq 550测序平台，对POLR1D沉默组与转染AllStars阴性对照的结直肠癌细胞系HT29、SW480开展重复实验，获取其全转录组表达谱。