Identification of a Novel Stem Cell Subtype for Clear Cell Renal Cell Carcinoma Based on Stem Cell Gene Profiling

Clear cell renal cell carcinoma (ccRCC) is the most common subtype of renal cancer and is characterized by high rates of metastasis. Cancer stem cell is a vital cause of renal cancer metastasis and recurrence. However, little is known regarding the change and the roles of stem cells during the devel...

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Autores principales:	Hongzhi Wang, Hanjiang Xu, Quan Cheng, Chaozhao Liang
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	clear cell renal cell cancer (ccRCC) stem cell subtype gene expression immune microenvironment Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282
Acceso en línea:	https://doaj.org/article/53cfec79e44749ffbe5b62c90f6efe01
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spelling	oai:doaj.org-article:53cfec79e44749ffbe5b62c90f6efe012021-12-01T13:58:27ZIdentification of a Novel Stem Cell Subtype for Clear Cell Renal Cell Carcinoma Based on Stem Cell Gene Profiling2234-943X10.3389/fonc.2021.758989https://doaj.org/article/53cfec79e44749ffbe5b62c90f6efe012021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fonc.2021.758989/fullhttps://doaj.org/toc/2234-943XClear cell renal cell carcinoma (ccRCC) is the most common subtype of renal cancer and is characterized by high rates of metastasis. Cancer stem cell is a vital cause of renal cancer metastasis and recurrence. However, little is known regarding the change and the roles of stem cells during the development of renal cancer. To clarify this problem, we developed a novel stem cell clustering strategy. Based on The Cancer Genome Atlas (TCGA) and the International Cancer Genome Consortium (ICGC) genomic datasets, we used 19 stem cell gene sets to classify each dataset. A machine learning method was used to perform the classification. We classified ccRCC into three subtypes—stem cell activated (SC-A), stem cell dormant (SC-D), and stem cell excluded (SC-E)—based on the expressions of stem cell-related genes. Compared with the other subtypes, C2(SC-A) had the highest degree of cancer stem cell concentration, the highest level of immune cell infiltration, a distinct mutation landscape, and the worst prognosis. Moreover, drug sensitivity analysis revealed that subgroup C2(SC-A) had the highest sensitivity to immunotherapy CTLA-4 blockade and the vascular endothelial growth factor receptor (VEGFR) inhibitor sunitinib. The identification of ccRCC subtypes based on cancer stem cell gene sets demonstrated the heterogeneity of ccRCC and provided a new strategy for its treatment.Hongzhi WangHongzhi WangHongzhi WangHanjiang XuHanjiang XuHanjiang XuQuan ChengChaozhao LiangChaozhao LiangChaozhao LiangFrontiers Media S.A.articleclear cell renal cell cancer (ccRCC)stem cellsubtypegene expressionimmune microenvironmentNeoplasms. Tumors. Oncology. Including cancer and carcinogensRC254-282ENFrontiers in Oncology, Vol 11 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	clear cell renal cell cancer (ccRCC) stem cell subtype gene expression immune microenvironment Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282
spellingShingle	clear cell renal cell cancer (ccRCC) stem cell subtype gene expression immune microenvironment Neoplasms. Tumors. Oncology. Including cancer and carcinogens RC254-282 Hongzhi Wang Hongzhi Wang Hongzhi Wang Hanjiang Xu Hanjiang Xu Hanjiang Xu Quan Cheng Chaozhao Liang Chaozhao Liang Chaozhao Liang Identification of a Novel Stem Cell Subtype for Clear Cell Renal Cell Carcinoma Based on Stem Cell Gene Profiling
description	Clear cell renal cell carcinoma (ccRCC) is the most common subtype of renal cancer and is characterized by high rates of metastasis. Cancer stem cell is a vital cause of renal cancer metastasis and recurrence. However, little is known regarding the change and the roles of stem cells during the development of renal cancer. To clarify this problem, we developed a novel stem cell clustering strategy. Based on The Cancer Genome Atlas (TCGA) and the International Cancer Genome Consortium (ICGC) genomic datasets, we used 19 stem cell gene sets to classify each dataset. A machine learning method was used to perform the classification. We classified ccRCC into three subtypes—stem cell activated (SC-A), stem cell dormant (SC-D), and stem cell excluded (SC-E)—based on the expressions of stem cell-related genes. Compared with the other subtypes, C2(SC-A) had the highest degree of cancer stem cell concentration, the highest level of immune cell infiltration, a distinct mutation landscape, and the worst prognosis. Moreover, drug sensitivity analysis revealed that subgroup C2(SC-A) had the highest sensitivity to immunotherapy CTLA-4 blockade and the vascular endothelial growth factor receptor (VEGFR) inhibitor sunitinib. The identification of ccRCC subtypes based on cancer stem cell gene sets demonstrated the heterogeneity of ccRCC and provided a new strategy for its treatment.
format	article
author	Hongzhi Wang Hongzhi Wang Hongzhi Wang Hanjiang Xu Hanjiang Xu Hanjiang Xu Quan Cheng Chaozhao Liang Chaozhao Liang Chaozhao Liang
author_facet	Hongzhi Wang Hongzhi Wang Hongzhi Wang Hanjiang Xu Hanjiang Xu Hanjiang Xu Quan Cheng Chaozhao Liang Chaozhao Liang Chaozhao Liang
author_sort	Hongzhi Wang
title	Identification of a Novel Stem Cell Subtype for Clear Cell Renal Cell Carcinoma Based on Stem Cell Gene Profiling
title_short	Identification of a Novel Stem Cell Subtype for Clear Cell Renal Cell Carcinoma Based on Stem Cell Gene Profiling
title_full	Identification of a Novel Stem Cell Subtype for Clear Cell Renal Cell Carcinoma Based on Stem Cell Gene Profiling
title_fullStr	Identification of a Novel Stem Cell Subtype for Clear Cell Renal Cell Carcinoma Based on Stem Cell Gene Profiling
title_full_unstemmed	Identification of a Novel Stem Cell Subtype for Clear Cell Renal Cell Carcinoma Based on Stem Cell Gene Profiling
title_sort	identification of a novel stem cell subtype for clear cell renal cell carcinoma based on stem cell gene profiling
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/53cfec79e44749ffbe5b62c90f6efe01
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Identification of a Novel Stem Cell Subtype for Clear Cell Renal Cell Carcinoma Based on Stem Cell Gene Profiling

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