Meta分析该如何搭上lncRNA?
论文题目
Potential role of LINC00996 in colorectal cancer: a study based on data mining and bioinformatics
摘要
Background: The clinical significance of LINC00996 in colorectal cancer (CRC) has not been verified. In the current study, the authors aimed to explore the expression of LINC00996 and its clinical significance in CRC based on the data mining of Gene Expression Omnibus (GEO) and the Cancer Genome Atlas (TCGA) datasets, as well as to elucidate the functions of its potential target genes.
Materials and methods: GEO and TCGA microarray datasets were used to evaluate the LINC00996 expression and its clinical significance in CRC. LINC00996 related genes were identified by Multi Experiment Matrix, RNA-Binding Protein DataBase, and The Atlas of Noncoding RNAs in Cancer. Subsequently, they were sent to gene ontology enrichment and Kyoto Encyclopedia of Genes and Genomes pathway analysis.
Results: LINC00996 is significantly decreased in CRC tissues compared with non-tumor tissues. Low level of LINC00996 is associated with remote metastasis and poor overall survival. However, LINC00996 has a minimal effect on gender, lymphatic invasion, tumor size, lymph node metastasis, and pathological stage. One hundred and forty-two LINC00996 related genes were identified; the results of functional analysis indicated that LINC00996 might repress tumorigenesis and metastasis via modulating the JAK-STAT, NF-κB, HIF-1, TLR, and PI3K-AKT signaling pathways.
Conclusion: Our study demonstrates that decreased LINC00996 expression may be involved in colorectal carcinogenesis and metastasis, and the depletion of LINC00996 is associated with a poor outcome in CRC patients. Moreover, the JAK-STAT, NF-κB, HIF-1, TLR, and PI3K-AKT pathways may be the key pathways regulated by LINC00996 in CRC.
分析内容
1、检索GEO数据库，下载相关的TCGA数据的lncRNA
2、对多个数据集进行meta分析
3、对LINC00996进行靶基因预测
4、对靶基因进行GO富集分析
5、进行KEGG富集分析
6、PPI分析
7、通过上面的分析，作者认为：LINC00996表达下降可能与结直肠癌的发生和转移有关，而LINC00996的消耗与结直肠癌患者的预后不良有关。 此外，JAK-STAT，NF-κB，HIF-1，TLR和PI3K-AKT途径可能是LINC00996在结直肠癌中调控的关键途径。
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