Potential Prognostic Value and Mechanism of Stromal-Immune Signature in Tumor Microenvironment for Stomach Adenocarcinoma.

BioMed Research International
Xinying ZhuDongqiang Zhao

Abstract

Stomach adenocarcinoma (STAD) is one of the most common malignancies. But the molecular mechanism is unknown. In this study, we downloaded the transcriptional profiles and clinical data of 344 STAD and 30 normal samples from The Cancer Genome Atlas (TCGA) database. Stromal and immune scores of STAD were calculated by the Estimation of Stromal and Immune cells in Malignant Tumor tissues using Expression data (ESTIMATE) algorithm, and association of stromal/immune scores with tumor differentiation/T/N/M stage and survival was investigated. The differentially expressed genes (DEGs) between high and low score groups (based on media) were identified, and prognostic genes over-/underexpressed in both STAD and stromal/immune signature were retrieved. Furthermore, proportions of 22 infiltrating immune cells for the cohort from TCGA were estimated by the Cell-type Identification By Estimating Relative Subsets Of RNA Transcripts (CIBERSORT) algorithm, and association of 22 immune cells with tumor differentiation/T/N/M stage and survival was investigated. Next, coexpression analysis of 22 immune cells and intersection genes over-/underexpressed in both STAD and stromal signature was conducted. We found high stromal and immune scores and m...Continue Reading

References

May 14, 2009·British Journal of Cancer·B CambienH Schmid-Antomarchi
Jan 28, 2010·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Alessandra Mancino, Toby Lawrence
Mar 24, 2012·Cancer Cell·Douglas Hanahan, Lisa M Coussens
Sep 28, 2013·Nature Genetics·UNKNOWN Cancer Genome Atlas Research NetworkJoshua M Stuart
Oct 12, 2013·Nature Communications·Kosuke YoshiharaRoel G W Verhaak
Dec 18, 2013·Tumour Biology : the Journal of the International Society for Oncodevelopmental Biology and Medicine·Min FangYan Li
Mar 31, 2015·Nature Methods·Aaron M NewmanAsh A Alizadeh
Oct 14, 2016·Gastric Cancer : Official Journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association·Kazuki Sumiyama
Dec 22, 2016·Annals of Surgery·Yuming JiangXiaolong Qi
Mar 23, 2017·Gastric Cancer : Official Journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association·Daiki TaniyamaWataru Yasui
Apr 19, 2017·Gastric Cancer : Official Journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association·Hitoshi KataiUNKNOWN Registration Committee of the Japanese Gastric Cancer Association
Dec 6, 2017·Cancer Treatment Reviews·Ryuma TokunagaHeinz-Josef Lenz
Mar 16, 2018·Cancer Immunology, Immunotherapy : CII·Francesca Finotello, Zlatko Trajanoski
Apr 25, 2018·The British Journal of Surgery·D ZengW Liao
May 17, 2018·Molecular Pharmaceutics·Aaron Dolor, Francis C Szoka
May 20, 2018·Journal of Controlled Release : Official Journal of the Controlled Release Society·Wenquan OuJong Oh Kim
Jul 11, 2018·Nature Medicine·Diether LambrechtsBernard Thienpont
Oct 16, 2018·Frontiers in Immunology·Katharina Helene SusekAndreas Lundqvist
Nov 1, 2018·Journal of Cellular Physiology·Masoud NajafiKeywan Mortezaee
Jan 9, 2019·Frontiers in Immunology·Chunmei Fu, Aimin Jiang
Feb 20, 2019·Nature Reviews. Gastroenterology & Hepatology·Hiroki KobayashiDaniel L Worthley
Jul 4, 2019·Cell Metabolism·Ilio VitaleLorenzo Galluzzi
Jan 9, 2020·CA: a Cancer Journal for Clinicians·Rebecca L SiegelAhmedin Jemal
Jan 9, 2020·American Journal of Physiology. Cell Physiology·Andreas Bikfalvi, Clotilde Billottet
Jan 22, 2020·Cancer Immunology, Immunotherapy : CII·Svenja Wagener-RyczekAlexander Quaas
Jan 27, 2020·Pharmacological Research : the Official Journal of the Italian Pharmacological Society·Ting WeiQingshan Li
Feb 9, 2020·The American Journal of Pathology·Subhashree KumaravelSanjukta Chakraborty

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Datasets Mentioned

BETA
GES84433

Methods Mentioned

BETA
flow cytometry

Software Mentioned

CIBERSORT
ESTIMATE
STRING
R package “ edgeR ”
limma R

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