毕业、评职称,用这种文章什么都不怕
现在发文章的方法有很多,例如不做用实验的meta分析,生信数据挖掘,但是有些人不会相信完全纯的数据挖掘,所以有些同学或者医生在毕业或者普升的过程中怕领导说什么,怕说不过去,那怎么办呢?我们可以来一个数据挖掘+实验结合的发文套路,这样有了实验,什么都不用担心。下面我们就是介绍一篇文章的做法,也就是Oncomine数据挖掘+实验的套路。
这篇文章是最近发表的,文章发表在Molecular Biology Reports上,这个期刊也是非常喜欢数据挖掘这类的文章,该期刊的影响因子为:1.89.
文章的题目:
Combined expression and prognostic significance of PPFIA1 and ALG3 in head and neck squamous cell carcinoma
文章摘要:
PPFIA family members and ALG3 play important roles in tumorigenesis and tumor progression. However, the exact roles of distinct PPFIA family members and ALG3 in head and neck squamous cell carcinoma (HNSCC) remain unclear. We studied the mRNA expressions of PPFIA family members and ALG3 in a variety of tumor types compared with the normal controls using the Oncomine database along with meta-analyses of their expressions in HNSCC cancer cell line. The mRNA expressions of PPFIA family members and ALG3 in laryngeal squamous cell carcinoma cell line and normal laryngeal cell line were detected by quantitative real-time polymerase chain reaction. Based on the cBioportal database, we further studied mRNA expression alterations and co-occurrence relationships of the PPFIA family members and ALG3 in HNSCC. The relationship between PPFIA1 and ALG3 mRNA expression alterations and prognoses in patients with HNSCC was explored. We found that PPFIA1 and ALG3 were distinctively overexpressed at the mRNA level in HNSCC tissues compared with normal tissues, they had a significant co-occurrence relationship, their mRNA expressions were significantly higher than other PPFIA family members in laryngeal squamous cell carcinoma cell line, and their mRNA expressions were also significantly higher in laryngeal carcinoma cell line than in normal laryngeal cell line. Patients without both PPFIA1 and ALG3 mRNA expression alterations had better overall survival and disease/progression-free survival compared with patients with both PPFIA1 and ALG3 alterations. Based on these findings, PPFIA1 and ALG3 may play roles in oncogene expression in HNSCC. Their combined overexpression is significantly associated with poor survival outcomes. The relationship between them and the mechanism of action in head and neck cancers deserve further investigation.
这篇文章思路就是分析一个基因家族在某这种癌症中的表达与预后的相关性,然后确定分析那些家族成员能够成为biomarker。工具就是Oncomine数据库、cBioPortal数据库,qR-PCR,就是一个简单的实验,前面的主要数据挖掘。
1、分析各家族成员在各癌症的表达情况
2、发现在head and neck cancer存在异常表达,进行差异分析
3、对多个数据合并发现,PPFIA1 and ALG3 在head and neck cancer中高表达(与normal相比),值得进一步深入研究
4、使用qR-PCR进行验证,结果跟数据挖掘一样
5、使用cBioPortal数据库进行预后分析,确定PPFIA1 and ALG3 的预后价值