Li Kunyan, Zhang Shuailong, Gu Yupeng, Wang Jinyan, Yang Yanqin, Mao Weifeng
College of Basic Medical Sciences, Dalian Medical University, Dalian 116044, PR China.
Department of Oncology, the Second Associated Hospital, Dalian Medical University, Dalian, 116011, PR China.
Data Brief. 2024 Feb 13;53:110183. doi: 10.1016/j.dib.2024.110183. eCollection 2024 Apr.
DNA-dependent protein kinase catalytic subunit (DNA-PK) is a multifunctional serine‑threonine protein kinase that plays roles in non-homologous end joining of DNA repair in cells. NU7441 is a specific DNA-PKcs inhibitor. We investigated the effects of NU7441 on the transcriptome of BT549 triple negative breast cancer cells. Total RNA extracted from NU7441-treated or control BT549 cells was processed for preparation of sequencing libraries. Assessment of read quality was performed using fastqc tool. Trimming and filtering low-quality reads were performed using fastp. Reads were aligned by hisat2. SAM files were converted to BAM files using Samtools. The gene differential expression analysis, Gene Ontology (GO) analysis and KEGG pathway analysis were performed. After NU7441 treatment, total number of 2045 differential genes were selected according to |log2(FoldChange)| >= 1 & padj<= 0.05, among which 1365 genes were down-regulated and 680 genes were up-regulated. The differential expression genes in pattern recognition receptors (PRRs) immune responses signals, including NOD-like receptor signaling, Toll-like receptor signaling, RIG-I-like receptor signaling and cytosolic DNA-sensing pathways were noted in this paper.
DNA依赖性蛋白激酶催化亚基（DNA-PK）是一种多功能丝氨酸-苏氨酸蛋白激酶，在细胞DNA修复的非同源末端连接中发挥作用。NU7441是一种特异性DNA-PKcs抑制剂。我们研究了NU7441对BT549三阴性乳腺癌细胞转录组的影响。从经NU7441处理的或对照BT549细胞中提取的总RNA用于制备测序文库。使用fastqc工具进行 reads 质量评估。使用fastp进行低质量 reads 的修剪和过滤。reads 通过hisat2进行比对。使用Samtools将SAM文件转换为BAM文件。进行基因差异表达分析、基因本体（GO）分析和KEGG通路分析。经NU7441处理后，根据|log2（倍数变化）|≥1且校正P值≤0.05选择出2045个差异基因，其中1365个基因下调，680个基因上调。本文注意到模式识别受体（PRR）免疫反应信号中的差异表达基因，包括NOD样受体信号传导、Toll样受体信号传导、RIG-I样受体信号传导和胞质DNA感应途径。
