A risk score staging system based on the expression of seven genes predicts the outcome of bladder cancer

Oncology Letters
Jianfeng ChuFengguang Li

Abstract

Bladder cancer (BLCA) is among the most malignant types of cancer. At present, the prognostic tools available for this disease are insufficient. In the present study, the transcriptome of 1,049 BLCA samples from four datasets from the Gene Expression Omnibus and The Cancer Genome Atlas (TCGA) were analyzed. By utilizing the RNA-seq data provided by TCGA, a risk score staging system model was built to predict the outcome of patients with BLCA using random forest variable hunting and Cox multivariate regression. A total of 7 genes, including zinc finger protein 230, Bcl2-like 14, AHNAK, transmembrane protein 109, apolipoprotein L2, advanced glycation end-product specific receptor and amine oxidase, copper containing 2 were identified as predicting the survival time of patients with BLCA. The patients with a low risk score had a significantly higher survival rate than those with a high-risk score both in the training and validation datasets. Association analyses between risk score and other clinical information were additionally performed; it was demonstrated that the risk score was significantly associated with pathological stage. A nomogram was plotted to compare risk score and other clinical information. The risk score spanned ...Continue Reading

References

Feb 13, 2004·Bioinformatics·Laurent GautierRafael A Irizarry
Oct 4, 2005·Proceedings of the National Academy of Sciences of the United States of America·Aravind SubramanianJill P Mesirov
Apr 17, 2010·PloS One·Veikko SalomaaStefan Blankenberg
Mar 19, 2011·BMC Bioinformatics·Xavier RobinMarkus Müller
May 11, 2012·Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology·Margaret R SpitzChristopher I Amos
Nov 21, 2013·International Journal of Oncology·Hitomi SudoTsuneo Saga
Aug 31, 2014·Cellular Signalling·T A DavisA-M Engelbrecht
Jan 7, 2015·CA: a Cancer Journal for Clinicians·Rebecca L SiegelAhmedin Jemal
Jan 9, 2016·CA: a Cancer Journal for Clinicians·Rebecca L SiegelAhmedin Jemal
Apr 9, 2016·International Journal of Hyperthermia : the Official Journal of European Society for Hyperthermic Oncology, North American Hyperthermia Group·Esmee I M L LiemTheo M de Reijke
Aug 6, 2016·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Enrique J Deandrés-GalianaStephen T Sonis
Nov 20, 2016·Oncotarget·Virginia UrquidiSteve Goodison
Nov 23, 2016·Nature Reviews. Clinical Oncology·Samuel A Funt, Jonathan E Rosenberg
Dec 17, 2016·Cancer Biomarkers : Section a of Disease Markers·Zehui HongTing Xu
Dec 31, 2016·Bladder Cancer·Lakshminarayanan Nandagopal, Guru Sonpavde

❮ Previous
Next ❯

Datasets Mentioned

BETA
GSE48075
E-MTAB-4321
GSE31684

Methods Mentioned

BETA
RNAseq

Software Mentioned

pROC
affy
randomForestSRC
Xena
survival
R

Related Concepts

Related Feeds

BCL-2 Family Proteins

BLC-2 family proteins are a group that share the same homologous BH domain. They play many different roles including pro-survival signals, mitochondria-mediated apoptosis and removal or damaged cells. They are often regulated by phosphorylation, affecting their catalytic activity. Here is the latest research on BCL-2 family proteins.

Cancer -Omics

A variety of different high-throughput technologies can be used to identify the complete catalog of changes that characterize the molecular profile of cohorts of tumor samples. Discover the latest insights gained from cancer 'omics' in this feed.