Transcriptomic analysis of TDRD9-depleted lung tumor cells

Tudor domain containing protein 9 (TDRD9) is a RNA helicase normally expressed in the germline. We have shown that TDRD9 is highly expressed in a subset of non-small cell lung carcinomas. Here we determine the transcriptomic changes of a TDRD9-positive lung tumor cells line (NCI-H1993) depleted of TDRD9. NCI-H1993 cells were treated either with siRNA control, siTDRD9-1 or siTDRD9-2 during 72 h. siTDRD9-1 and siTDRD9-2 are two different siRNAs against the transcript of TDRD9 gene. Triplicated independent cultures were recovered and processed for RNA extraction and hybridization on Affymetrix microarrays.

含Tudor结构域蛋白9（Tudor domain containing protein 9, TDRD9）属于RNA解旋酶，通常在生殖系中表达。本研究团队此前已证实，TDRD9在部分非小细胞肺癌亚型中呈高表达。本研究旨在探究TDRD9敲低的TDRD9阳性肺癌细胞系（NCI-H1993）的转录组变化：将NCI-H1993细胞分别以阴性对照小干扰RNA（siRNA control）、siTDRD9-1或siTDRD9-2处理72小时；其中siTDRD9-1与siTDRD9-2为两种靶向TDRD9基因转录本的不同小干扰RNA。每组设置3次独立生物学重复，收集细胞后进行RNA提取，并在Affymetrix基因芯片上完成杂交实验。