Comprehensive analysis identifies IFI16 as a novel signature associated with overall survival and immune infiltration of skin cutaneous melanoma.
Comprehensive analysis identifies IFI16 as a novel signature associated with overall survival and immune infiltration of skin cutaneous melanoma.
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综合分析确定 IFI16 是与皮肤黑色素瘤的总体生存和免疫浸润相关的新特征
DOI：
10.1186/s12935-021-02409-6
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发表时间：
2021-12-20
影响因子：
5.8
通讯作者：
Xie J
中科院分区：
文献类型：
--
作者：
Wang H;Xie X;Zhu J;Qi S;Xie J
皮肤黑色素瘤（SKCM）是最常见的皮肤肿瘤，死亡率高。SKCM的不利结果促使人们发现预后生物标志物以进行准确的治疗。本研究旨在探索SKCM的新的预后相关特征，并确定免疫细胞浸润在该病理中的意义。从GEO数据库中检索SKCM和正常皮肤样本的4个基因表达谱（GSE130244、GSE3189、GSE7553和GSE46517）。筛选差异表达基因（differential expression genes, DEGs），利用LASSO回归和Boruta算法识别特征基因。进行生存分析以筛选潜在的预后特征，并使用GEPIA进行初步验证。以受试者工作特征曲线下面积（AUC）评价其鉴别能力。进行基因集变异分析（GSVA），并使用CIBERSORT估计SKCM中免疫细胞浸润的组成。最后，采集原代SKCM和正常皮肤组织的石蜡包埋标本，采用荧光原位杂交（FISH）和免疫组化（IHC）验证特征。共筛选出823个deg和16个特征基因。IFI16被确定为与SKCM总生存率相关的特征，具有很强的区分能力（所有数据集的AUC为0.9）。GSVA发现IFI16可能参与SKCM细胞凋亡和紫外线应答，并对IFI16的免疫细胞浸润进行了评价。最后，FISH和IHC验证了IFI16在SKCM中的差异表达。综上所述，我们的综合分析发现IFI16与SKCM的总体生存和免疫浸润相关，可能在SKCM的发生和发展中发挥关键作用。在线版本包含补充材料，可在10.1186/s12935-021-02409-6获得。
Skin cutaneous melanoma (SKCM) is the most common skin tumor with high mortality. The unfavorable outcome of SKCM urges the discovery of prognostic biomarkers for accurate therapy. The present study aimed to explore novel prognosis-related signatures of SKCM and determine the significance of immune cell infiltration in this pathology. Four gene expression profiles (GSE130244, GSE3189, GSE7553 and GSE46517) of SKCM and normal skin samples were retrieved from the GEO database. Differentially expressed genes (DEGs) were then screened, and the feature genes were identified by the LASSO regression and Boruta algorithm. Survival analysis was performed to filter the potential prognostic signature, and GEPIA was used for preliminary validation. The area under the receiver operating characteristic curve (AUC) was obtained to evaluate discriminatory ability. The Gene Set Variation Analysis (GSVA) was performed, and the composition of the immune cell infiltration in SKCM was estimated using CIBERSORT. At last, paraffin-embedded specimens of primary SKCM and normal skin tissues were collected, and the signature was validated by fluorescence in situ hybridization (FISH) and immunohistochemistry (IHC). Totally 823 DEGs and 16 feature genes were screened. IFI16 was identified as the signature associated with overall survival of SKCM with a great discriminatory ability (AUC > 0.9 for all datasets). GSVA noticed that IFI16 might be involved in apoptosis and ultraviolet response in SKCM, and immune cell infiltration of IFI16 was evaluated. At last, FISH and IHC both validated the differential expression of IFI16 in SKCM. In conclusion, our comprehensive analysis identified IFI16 as a signature associated with overall survival and immune infiltration of SKCM, which may play a critical role in the occurrence and development of SKCM. The online version contains supplementary material available at 10.1186/s12935-021-02409-6.
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影响因子：
7.3
作者：
Huang S;Song Z;Zhang T;He X;Huang K;Zhang Q;Shen J;Pan J
通讯作者：
Pan J
影响因子：
2.3
作者：
Gariglio, M;Azzimonti, B;Landolfo, S
通讯作者：
Landolfo, S
影响因子：
3.1
作者：
Ouchi, Mutsuko;Ouchi, Toru
通讯作者：
Ouchi, Toru
炒作或希望：癌症中免疫细胞的预后价值。
影响因子：
8.8
作者：
Barnes TA;Amir E
通讯作者：
Amir E
影响因子：
4.5
作者：
Lee, Nayoung;Zakka, Labib R.;Schatton, Tobias
通讯作者：
Schatton, Tobias