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Single Cell RNA-Seq Identifies Immune-Related Prognostic Model and Key Signature-SPP1 in Pancreatic Ductal Adenocarcinoma

There are no reliable biomarkers for early diagnosis or prognosis evaluation in pancreatic ductal adenocarcinoma (PDAC). Multiple scRNA-seq datasets for PDAC were retrieved from online databases and combined with scRNA-seq results from our previous study. The malignant ductal cells were identified t...

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Autores principales: Chen, Kai, Wang, Qi, Liu, Xinxin, Wang, Feng, Ma, Yongsu, Zhang, Shupeng, Shao, Zhijiang, Yang, Yinmo, Tian, Xiaodong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9601640/
https://www.ncbi.nlm.nih.gov/pubmed/36292645
http://dx.doi.org/10.3390/genes13101760
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author Chen, Kai
Wang, Qi
Liu, Xinxin
Wang, Feng
Ma, Yongsu
Zhang, Shupeng
Shao, Zhijiang
Yang, Yinmo
Tian, Xiaodong
author_facet Chen, Kai
Wang, Qi
Liu, Xinxin
Wang, Feng
Ma, Yongsu
Zhang, Shupeng
Shao, Zhijiang
Yang, Yinmo
Tian, Xiaodong
author_sort Chen, Kai
collection PubMed
description There are no reliable biomarkers for early diagnosis or prognosis evaluation in pancreatic ductal adenocarcinoma (PDAC). Multiple scRNA-seq datasets for PDAC were retrieved from online databases and combined with scRNA-seq results from our previous study. The malignant ductal cells were identified through calculating copy number variation (CNV) scores. The robust markers of malignant ductal cells in PDAC were found. Five immune-related signatures, including SPP1, LINC00683, SNHG10, LINC00237, and CASC19, were used to develop a risk score formula to predict the overall survival of PDAC patients. We also constructed an easy-to-use nomogram, combining risk score, N stage, and margin status. The expression level of SPP1 was related to the prognosis and immune regulators. We found that SPP1 was mainly expressed in ductal cells and macrophages in PDAC. In conclusion, we constructed a promising prognostic model based on immune-related signatures for PDAC using scRNA-seq and TCGA_PAAD datasets.
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spelling pubmed-96016402022-10-27 Single Cell RNA-Seq Identifies Immune-Related Prognostic Model and Key Signature-SPP1 in Pancreatic Ductal Adenocarcinoma Chen, Kai Wang, Qi Liu, Xinxin Wang, Feng Ma, Yongsu Zhang, Shupeng Shao, Zhijiang Yang, Yinmo Tian, Xiaodong Genes (Basel) Article There are no reliable biomarkers for early diagnosis or prognosis evaluation in pancreatic ductal adenocarcinoma (PDAC). Multiple scRNA-seq datasets for PDAC were retrieved from online databases and combined with scRNA-seq results from our previous study. The malignant ductal cells were identified through calculating copy number variation (CNV) scores. The robust markers of malignant ductal cells in PDAC were found. Five immune-related signatures, including SPP1, LINC00683, SNHG10, LINC00237, and CASC19, were used to develop a risk score formula to predict the overall survival of PDAC patients. We also constructed an easy-to-use nomogram, combining risk score, N stage, and margin status. The expression level of SPP1 was related to the prognosis and immune regulators. We found that SPP1 was mainly expressed in ductal cells and macrophages in PDAC. In conclusion, we constructed a promising prognostic model based on immune-related signatures for PDAC using scRNA-seq and TCGA_PAAD datasets. MDPI 2022-09-29 /pmc/articles/PMC9601640/ /pubmed/36292645 http://dx.doi.org/10.3390/genes13101760 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Chen, Kai
Wang, Qi
Liu, Xinxin
Wang, Feng
Ma, Yongsu
Zhang, Shupeng
Shao, Zhijiang
Yang, Yinmo
Tian, Xiaodong
Single Cell RNA-Seq Identifies Immune-Related Prognostic Model and Key Signature-SPP1 in Pancreatic Ductal Adenocarcinoma
title Single Cell RNA-Seq Identifies Immune-Related Prognostic Model and Key Signature-SPP1 in Pancreatic Ductal Adenocarcinoma
title_full Single Cell RNA-Seq Identifies Immune-Related Prognostic Model and Key Signature-SPP1 in Pancreatic Ductal Adenocarcinoma
title_fullStr Single Cell RNA-Seq Identifies Immune-Related Prognostic Model and Key Signature-SPP1 in Pancreatic Ductal Adenocarcinoma
title_full_unstemmed Single Cell RNA-Seq Identifies Immune-Related Prognostic Model and Key Signature-SPP1 in Pancreatic Ductal Adenocarcinoma
title_short Single Cell RNA-Seq Identifies Immune-Related Prognostic Model and Key Signature-SPP1 in Pancreatic Ductal Adenocarcinoma
title_sort single cell rna-seq identifies immune-related prognostic model and key signature-spp1 in pancreatic ductal adenocarcinoma
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9601640/
https://www.ncbi.nlm.nih.gov/pubmed/36292645
http://dx.doi.org/10.3390/genes13101760
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