Pancancer survival analysis of cancer hallmark genes

Abstract Cancer hallmark genes are responsible for the most essential phenotypic characteristics of malignant transformation and progression. In this study, our aim was to estimate the prognostic effect of the established cancer hallmark genes in multiple distinct cancer types. RNA-seq HTSeq counts...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Ádám Nagy, Gyöngyi Munkácsy, Balázs Győrffy
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/4ce5b67313de4acf9c5d1857b1800229
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:4ce5b67313de4acf9c5d1857b1800229
record_format	dspace
spelling	oai:doaj.org-article:4ce5b67313de4acf9c5d1857b18002292021-12-02T16:31:17ZPancancer survival analysis of cancer hallmark genes10.1038/s41598-021-84787-52045-2322https://doaj.org/article/4ce5b67313de4acf9c5d1857b18002292021-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-84787-5https://doaj.org/toc/2045-2322Abstract Cancer hallmark genes are responsible for the most essential phenotypic characteristics of malignant transformation and progression. In this study, our aim was to estimate the prognostic effect of the established cancer hallmark genes in multiple distinct cancer types. RNA-seq HTSeq counts and survival data from 26 different tumor types were acquired from the TCGA repository. DESeq was used for normalization. Correlations between gene expression and survival were computed using the Cox proportional hazards regression and by plotting Kaplan–Meier survival plots. The false discovery rate was calculated to correct for multiple hypothesis testing. Signatures based on genes involved in genome instability and invasion reached significance in most individual cancer types. Thyroid and glioblastoma were independent of hallmark genes (61 and 54 genes significant, respectively), while renal clear cell cancer and low grade gliomas harbored the most prognostic changes (403 and 419 genes significant, respectively). The eight genes with the highest significance included BRCA1 (genome instability, HR 4.26, p < 1E−16), RUNX1 (sustaining proliferative signaling, HR 2.96, p = 3.1E−10) and SERPINE1 (inducing angiogenesis, HR 3.36, p = 1.5E−12) in low grade glioma, CDK1 (cell death resistance, HR = 5.67, p = 2.1E−10) in kidney papillary carcinoma, E2F1 (tumor suppressor, HR 0.38, p = 2.4E−05) and EREG (enabling replicative immortality, HR 3.23, p = 2.1E−07) in cervical cancer, FBP1 (deregulation of cellular energetics, HR 0.45, p = 2.8E−07) in kidney renal clear cell carcinoma and MYC (invasion and metastasis, HR 1.81, p = 5.8E−05) in bladder cancer. We observed unexpected heterogeneity and tissue specificity when correlating cancer hallmark genes and survival. These results will help to prioritize future targeted therapy development in different types of solid tumors.Ádám NagyGyöngyi MunkácsyBalázs GyőrffyNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-10 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Ádám Nagy Gyöngyi Munkácsy Balázs Győrffy Pancancer survival analysis of cancer hallmark genes
description	Abstract Cancer hallmark genes are responsible for the most essential phenotypic characteristics of malignant transformation and progression. In this study, our aim was to estimate the prognostic effect of the established cancer hallmark genes in multiple distinct cancer types. RNA-seq HTSeq counts and survival data from 26 different tumor types were acquired from the TCGA repository. DESeq was used for normalization. Correlations between gene expression and survival were computed using the Cox proportional hazards regression and by plotting Kaplan–Meier survival plots. The false discovery rate was calculated to correct for multiple hypothesis testing. Signatures based on genes involved in genome instability and invasion reached significance in most individual cancer types. Thyroid and glioblastoma were independent of hallmark genes (61 and 54 genes significant, respectively), while renal clear cell cancer and low grade gliomas harbored the most prognostic changes (403 and 419 genes significant, respectively). The eight genes with the highest significance included BRCA1 (genome instability, HR 4.26, p < 1E−16), RUNX1 (sustaining proliferative signaling, HR 2.96, p = 3.1E−10) and SERPINE1 (inducing angiogenesis, HR 3.36, p = 1.5E−12) in low grade glioma, CDK1 (cell death resistance, HR = 5.67, p = 2.1E−10) in kidney papillary carcinoma, E2F1 (tumor suppressor, HR 0.38, p = 2.4E−05) and EREG (enabling replicative immortality, HR 3.23, p = 2.1E−07) in cervical cancer, FBP1 (deregulation of cellular energetics, HR 0.45, p = 2.8E−07) in kidney renal clear cell carcinoma and MYC (invasion and metastasis, HR 1.81, p = 5.8E−05) in bladder cancer. We observed unexpected heterogeneity and tissue specificity when correlating cancer hallmark genes and survival. These results will help to prioritize future targeted therapy development in different types of solid tumors.
format	article
author	Ádám Nagy Gyöngyi Munkácsy Balázs Győrffy
author_facet	Ádám Nagy Gyöngyi Munkácsy Balázs Győrffy
author_sort	Ádám Nagy
title	Pancancer survival analysis of cancer hallmark genes
title_short	Pancancer survival analysis of cancer hallmark genes
title_full	Pancancer survival analysis of cancer hallmark genes
title_fullStr	Pancancer survival analysis of cancer hallmark genes
title_full_unstemmed	Pancancer survival analysis of cancer hallmark genes
title_sort	pancancer survival analysis of cancer hallmark genes
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/4ce5b67313de4acf9c5d1857b1800229
work_keys_str_mv	AT adamnagy pancancersurvivalanalysisofcancerhallmarkgenes AT gyongyimunkacsy pancancersurvivalanalysisofcancerhallmarkgenes AT balazsgyorffy pancancersurvivalanalysisofcancerhallmarkgenes
_version_	1718383870111383552

Pancancer survival analysis of cancer hallmark genes

Ejemplares similares