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都2017年的还可以继续灌TCGA的signature这样的水文章

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发表于 2017-5-19 14:32:04 | 显示全部楼层 |阅读模式
是传说中的是4大水刊发表的,没想到2017还在搞这些玩意, Oncotarget
A five-long non-coding RNA signature to improve prognosis prediction of clear cell renal cell carcinoma.
Oncotarget. 2017 Apr 28. doi: 10.18632/oncotarget.17506. [Epub ahead of print]
http://www.impactjournals.com/on ... 06&path%5B%5D=56018

Recent works have reported that long non-coding RNAs (lncRNAs) play critical roles in tumorigenesis and prognosis of cancers, suggesting the potential utility of lncRNAs as cancer prognostic markers.
However, lncRNA signatures in predicting the survival of patients with clear cell renal cell carcinoma (ccRCC) remain unknown.
In this study, we attempted to identify lncRNA signatures and their prognostic values in ccRCC.
Using lncRNA expression profiling data in 440 ccRCC tumors from The Cancer Genome Atlas (TCGA) data,
a five-lncRNA signature (AC069513.4, AC003092.1, CTC-205M6.2, RP11-507K2.3, U91328.21) has been identified to be significantly associated with ccRCC patients' overall survival in both training set and testing set.
Based on the lncRNA signature, ccRCC patients could be divided into high-risk and low-risk group with significantly different survival rate.
Further multivariable Cox regression analysis suggested that the prognostic value of this signature was independent of clinical factors.
Functional enrichment analyses showed the potential functional roles of the five prognostic lncRNAs in ccRCC oncogenesis.
These results indicated that this five-lncRNA signature could be used as an independent prognostic biomarker in the prediction of ccRCC patients' survival.



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发表于 2017-5-19 20:05:32 | 显示全部楼层
老司机们飙车飙的这么快 让我们年轻司机如何是好啊
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 楼主| 发表于 2017-5-19 14:33:15 | 显示全部楼层
同样是2017年,这里有个文章说signature这种分析结果不靠谱的:
Droop J, Szarvas T, Schulz WA et al. (2017) Diagnostic and prognostic value of long noncoding RNAs as biomarkers in urothelial carcinoma. PLoS One 12(4): e0176287. [article]
During this study, published in PLoS One, the expression levels of seven long non-coding RNA candidates (GAS5, H19, linc-UBC1, MALAT1 ncRAN, TUG1, UCA1) that have been identified previously were investigated.

Expression data provided for lncRNAs by the TANRIC database is based on the TCGA bladder urothelial carcinoma (BLCA) dataset (set 2) consisting of 252 tumour tissue samples and 19 benign tissue samples

The concentration of these potential biomarkers was measured using quantitative real-time PCR analysis on urothelial carcinoma cell lines, in comparison to a benign cell lines. Researchers demonstrated that out of the seven proposed biomarker candidates, six of them tended to be upregulated in urothelial carcinoma tumor tissue, the exception being MALAT1.
Although there were specific cases where some of the candidate biomarkers were overexpressed in urothelial cell lines, there was no overall consistency with the levels of expression throughout all the analyzed tumor tissues. Ergo, none of the results were statistically significant.
Furthermore, the study also revealed that for a particular subset of urothelial carcinoma patients with muscle-invasive tumors, a reduced overall survival was highly correlated with lower levels of TUG1 expression. It was later identified that the down regulation of TUG1 was a characteristic signature of the basal-squamous-like molecular subtype that can be associated with low survival.
The researchers concluded that as it stands, none of the identified biomarkers can be individually or specifically utilized for diagnosis or prognosis of urothelial carcinoma, due to the lack of result consistency. However, it is hoped that further investigation of these long non-coding regions of RNA could provide other relevant information, such as identifying the subtype of urothelial carcinoma which could lead to more personalized treatments.
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发表于 2017-5-26 10:14:00 | 显示全部楼层
赞成楼上观点,我们这些年轻的小司机还是灌灌水的比较好。。。。。。。
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