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除了看gene的表达量,还可以具体看它们的isoform的表达量

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发表于 2017-3-5 00:38:31 | 显示全部楼层 |阅读模式
看到这个文章,有点意思:http://bmcgenomics.biomedcentral ... 6/s12864-016-2521-9
题目是:Identification of mRNA isoform switching in breast cancer
分析单一癌症,这样也好写文章。
首先是下载数据,你肯定会的咯
We systematically analyzed the isoform-level expression patterns and isoform switching events of 819 breast tumor and normal samples assayed by mRNA-seq from TCGA project.
然后,就是我们一直强调的编程基础功咯,我们论坛有这个练习题
On average, 2.2 isoforms per gene were detected and 67.5 % of detected genes (i.e. expressed) showed 1–2 isoforms only.
简单的一个编程,再看看correlation,就可以得到下面的结论,再好好把结果用英文写出来,一篇文章,就灌水成啦
While the majority of isoforms for a given gene were positively correlated with each other and the overall gene level, 470 pairs of isoforms displayed an inverse correlation suggesting a switching event.
Most of the isoform switching events were associated with molecular subtypes, including a Basal-like-associated switching in CTNND1. 88 genes showed switching independent of subtypes, among which the isoform pattern of PRICKLE1 was associated with a large genomic signature of biological significance.
你这个问题很复杂,需要打赏,请点击 http://www.bio-info-trainee.com/donate 进行打赏,谢谢
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