Identification of a 5-Gene Metabolic Signature for Predicting Prognosis Based on an Integrated Analysis of Tumor Microenvironment in Lung Adenocarcinoma

Journal of Oncology
Xiaolin YuYanxia Zhang

Abstract

Lung adenocarcinoma (LUAD) is a common subtype of lung cancer with a depressing survival rate. The reprogramming of tumor metabolism was identified as a new hallmark of cancer in tumor microenvironment (TME), and we made a comprehensive exploration to reveal the prognostic role of the metabolic-related genes. Transcriptome profiling data of LUAD were, respectively, downloaded from the Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) database. Based on the extracted metabolic-related genes, a novel 5-gene metabolic prognostic signature (including GNPNAT1, LPGAT1, TYMS, LDHA, and PTGES) was constructed by univariate Cox regression and least absolute shrinkage and selection operator (LASSO) regression. This signature confirmed its robustness and accuracy by external validation in multiple databases. It could be an independent risk factor for LUAD, and the nomograms possessed moderately accurate performance with the C-index of 0.755 (95% confidence interval: 0.706-0.804) and 0.691 (95% confidence interval: 0.636-0.746) in training set and testing set. This signature could reveal the metabolic features according to the results of gene set enrichment analysis (GSEA) and meanwhile monitor the status of TME through ESTIMATE...Continue Reading

References

Mar 8, 2011·Cell·Douglas Hanahan, Robert A Weinberg
Mar 16, 2013·Lung Cancer : Journal of the International Association for the Study of Lung Cancer·Han Sang KimByoung Chul Cho
Oct 12, 2013·Nature Communications·Kosuke YoshiharaRoel G W Verhaak
Jan 22, 2015·Nucleic Acids Research·Matthew E RitchieGordon K Smyth
Mar 31, 2015·Nature Methods·Aaron M NewmanAsh A Alizadeh
Nov 19, 2015·Annals of Oncology : Official Journal of the European Society for Medical Oncology·T DonnemR M Bremnes
Jan 16, 2016·Cell Metabolism·Natalya N Pavlova, Craig B Thompson
Jan 26, 2016·Journal of Thoracic Oncology : Official Publication of the International Association for the Study of Lung Cancer·Marta SimóAntoni Rodríguez-Fornells
Sep 13, 2016·Journal of Thoracic Oncology : Official Publication of the International Association for the Study of Lung Cancer·Shiyong LiMao Mao
May 23, 2018·Medicinal Research Reviews·Ma Carmen OcañaMiguel Ángel Medina
Dec 24, 2018·Journal of Thoracic Oncology : Official Publication of the International Association for the Study of Lung Cancer·Hannah O'FarrellWilliam W Lockwood
Jan 9, 2019·CA: a Cancer Journal for Clinicians·Rebecca L SiegelAhmedin Jemal
Feb 20, 2019·Journal of Translational Medicine·Xiao-Xia LiuYi-Qing Qu
Mar 6, 2019·Journal of Translational Medicine·Qian SongXianghua Wu
Mar 28, 2019·Nature Reviews. Clinical Oncology·Xiaoyun LiPing-Chih Ho
May 3, 2019·Journal of Cellular Biochemistry·Huihui ZhouDanli Zeng
Jul 13, 2019·Journal of Cellular Biochemistry·Min XueXiwen Gao
Oct 9, 2019·International Journal of Biological Sciences·Chenhao ZhouNing Ren

❮ Previous
Next ❯

Datasets Mentioned

BETA
GSE72094

Software Mentioned

glmnet
CIBERSORT
survival package
R
Gene Set Enrichment Analysis ( GSEA )
ESTIMATE
limma
GSEA

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.