Alsagaby Suliman A
Department of Medical Laboratory Sciences, College of Applied Medical Sciences, Majmaah University, AL-Majmaah, 11952 Saudi Arabia.
3 Biotech. 2022 Aug;12(8):160. doi: 10.1007/s13205-022-03223-1. Epub 2022 Jul 7.
High RNA integrity is essential for good quality of transcriptomics profiling. Nevertheless, in some cases samples with low RNA integrity is the only available material to study. This work was set to investigate the impact of thermal-induced RNA degradation on the transcriptomic profiles of human leukemic cells. DNA microarray-based transcriptomics was conducted on two groups of samples; high RNA integrity samples ( = 4) and low RNA integrity samples ( = 5). RNA degradation caused limited but noticeable changes in the transcriptomes. Only 1945 (6.7%) of 29,230 genes showed altered quantitation (fold change ≥ two-fold, value ≤ 0.03, corrected value ≤ 0.05). RNA degradation had the most impact on short transcripts and those with short distance between their 5'end and the probe binding position. Overall, the present work identified the genes whose relative quantification is sensitive to RNA degradation. Therefore, altered expression of these genes should be interpreted with caution when studied in low integrity RNA samples.
The online version contains supplementary material available at 10.1007/s13205-022-03223-1.
高RNA完整性对于高质量的转录组分析至关重要。然而，在某些情况下，低RNA完整性的样本是唯一可用于研究的材料。这项工作旨在研究热诱导的RNA降解对人白血病细胞转录组图谱的影响。对两组样本进行了基于DNA微阵列的转录组学分析；高RNA完整性样本（n = 4）和低RNA完整性样本（n = 5）。RNA降解在转录组中引起了有限但明显的变化。在29230个基因中，只有1945个（6.7%）显示定量改变（倍数变化≥两倍，p值≤0.03，校正p值≤0.05）。RNA降解对短转录本以及5'端与探针结合位置之间距离短的转录本影响最大。总体而言，本研究确定了相对定量对RNA降解敏感的基因。因此，在低完整性RNA样本中研究这些基因时，其表达改变应谨慎解释。
在线版本包含可在10.1007/s13205-022-03223-1获取的补充材料。
