RNA-seq profiling reveals PBMC RNA as a potential biomarker for hepatocellular carcinoma

Abstract Hepatocellular carcinoma (HCC) is one of the most common malignant tumors and has extremely high morbidity and mortality. Although many existing studies have focused on the identification of biomarkers, little information has been uncovered regarding the PBMC RNA profile of HCC. We attempte...

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Autores principales:	Zhiyi Han, Wenxing Feng, Rui Hu, Qinyu Ge, Wenfeng Ma, Wei Zhang, Shaomin Xu, Bolin Zhan, Lai Zhang, Xinfeng Sun, Xiaozhou Zhou
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/c341afc478664a56b2965c0c74e05690
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spelling	oai:doaj.org-article:c341afc478664a56b2965c0c74e056902021-12-02T18:03:05ZRNA-seq profiling reveals PBMC RNA as a potential biomarker for hepatocellular carcinoma10.1038/s41598-021-96952-x2045-2322https://doaj.org/article/c341afc478664a56b2965c0c74e056902021-09-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-96952-xhttps://doaj.org/toc/2045-2322Abstract Hepatocellular carcinoma (HCC) is one of the most common malignant tumors and has extremely high morbidity and mortality. Although many existing studies have focused on the identification of biomarkers, little information has been uncovered regarding the PBMC RNA profile of HCC. We attempted to create a profile throughout using expression of peripheral blood mononuclear cell (PBMC) RNA using RNA-seq technology and compared the transcriptome between HCC patients and healthy controls. Seventeen patients and 17 matched healthy controls were included in this study, and PBMC RNA was sequenced from all samples. Sequencing data were analyzed using bioinformatics tools, and quantitative reverse transcription PCR (qRT-PCR) was used for selected validation of DEGs. A total of 1,578 dysregulated genes were found in the PBMC samples, including 1,334 upregulated genes and 244 downregulated genes. GO enrichment and KEGG studies revealed that HCC is closely linked to differentially expressed genes (DEGs) implicated in the immune response. Expression of 6 selected genes (SELENBP1, SLC4A1, SLC26A8, HSPA8P4, CALM1, and RPL7p24) was confirmed by qRT-PCR, and higher sensitivity and specificity were obtained by ROC analysis of the 6 genes. CALM1 was found to gradually decrease as tumors enlarged. Nearly the opposite expression modes were obtained when compared to tumor sequencing data. Immune cell populations exhibited significant differences between HCC and controls. These findings suggest a potential biomarker for the diagnosis of HCC. This study provides new perspectives for liver cancer development and possible future successful clinical diagnosis.Zhiyi HanWenxing FengRui HuQinyu GeWenfeng MaWei ZhangShaomin XuBolin ZhanLai ZhangXinfeng SunXiaozhou ZhouNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-14 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Zhiyi Han Wenxing Feng Rui Hu Qinyu Ge Wenfeng Ma Wei Zhang Shaomin Xu Bolin Zhan Lai Zhang Xinfeng Sun Xiaozhou Zhou RNA-seq profiling reveals PBMC RNA as a potential biomarker for hepatocellular carcinoma
description	Abstract Hepatocellular carcinoma (HCC) is one of the most common malignant tumors and has extremely high morbidity and mortality. Although many existing studies have focused on the identification of biomarkers, little information has been uncovered regarding the PBMC RNA profile of HCC. We attempted to create a profile throughout using expression of peripheral blood mononuclear cell (PBMC) RNA using RNA-seq technology and compared the transcriptome between HCC patients and healthy controls. Seventeen patients and 17 matched healthy controls were included in this study, and PBMC RNA was sequenced from all samples. Sequencing data were analyzed using bioinformatics tools, and quantitative reverse transcription PCR (qRT-PCR) was used for selected validation of DEGs. A total of 1,578 dysregulated genes were found in the PBMC samples, including 1,334 upregulated genes and 244 downregulated genes. GO enrichment and KEGG studies revealed that HCC is closely linked to differentially expressed genes (DEGs) implicated in the immune response. Expression of 6 selected genes (SELENBP1, SLC4A1, SLC26A8, HSPA8P4, CALM1, and RPL7p24) was confirmed by qRT-PCR, and higher sensitivity and specificity were obtained by ROC analysis of the 6 genes. CALM1 was found to gradually decrease as tumors enlarged. Nearly the opposite expression modes were obtained when compared to tumor sequencing data. Immune cell populations exhibited significant differences between HCC and controls. These findings suggest a potential biomarker for the diagnosis of HCC. This study provides new perspectives for liver cancer development and possible future successful clinical diagnosis.
format	article
author	Zhiyi Han Wenxing Feng Rui Hu Qinyu Ge Wenfeng Ma Wei Zhang Shaomin Xu Bolin Zhan Lai Zhang Xinfeng Sun Xiaozhou Zhou
author_facet	Zhiyi Han Wenxing Feng Rui Hu Qinyu Ge Wenfeng Ma Wei Zhang Shaomin Xu Bolin Zhan Lai Zhang Xinfeng Sun Xiaozhou Zhou
author_sort	Zhiyi Han
title	RNA-seq profiling reveals PBMC RNA as a potential biomarker for hepatocellular carcinoma
title_short	RNA-seq profiling reveals PBMC RNA as a potential biomarker for hepatocellular carcinoma
title_full	RNA-seq profiling reveals PBMC RNA as a potential biomarker for hepatocellular carcinoma
title_fullStr	RNA-seq profiling reveals PBMC RNA as a potential biomarker for hepatocellular carcinoma
title_full_unstemmed	RNA-seq profiling reveals PBMC RNA as a potential biomarker for hepatocellular carcinoma
title_sort	rna-seq profiling reveals pbmc rna as a potential biomarker for hepatocellular carcinoma
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/c341afc478664a56b2965c0c74e05690
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RNA-seq profiling reveals PBMC RNA as a potential biomarker for hepatocellular carcinoma

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