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Exploration of the molecular mechanism of intercellular communication in paediatric neuroblastoma by single-cell sequencing

Neuroblastoma (NB) is an embryonic tumour that originates in the sympathetic nervous system and occurs most often in infants and children under 2 years of age. Moreover, it is the most common extracranial solid tumour in children. Increasing studies suggest that intercellular communication within th...

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Autor principal: Chu, Jing
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10663476/
https://www.ncbi.nlm.nih.gov/pubmed/37990103
http://dx.doi.org/10.1038/s41598-023-47796-0
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author Chu, Jing
author_facet Chu, Jing
author_sort Chu, Jing
collection PubMed
description Neuroblastoma (NB) is an embryonic tumour that originates in the sympathetic nervous system and occurs most often in infants and children under 2 years of age. Moreover, it is the most common extracranial solid tumour in children. Increasing studies suggest that intercellular communication within the tumour microenvironment is closely related to tumour development. This study aimed to construct a prognosis-related intercellular communication-associated genes model by single-cell sequencing and transcriptome sequencing to predict the prognosis of patients with NB for precise management. Single-cell data from patients with NB were downloaded from the gene expression omnibus database for comprehensive analysis. Furthermore, prognosis-related genes were screened in the TARGET database based on epithelial cell marker genes through a combination of Cox regression and Lasso regression analyses, using GSE62564 and GSE85047 for external validation. The patients’ risk scores were calculated, followed by immune infiltration analysis, drug sensitivity analysis, and enrichment analysis of risk scores, which were conducted for the prognostic model. I used the Lasso regression feature selection algorithm to screen characteristic genes in NB and developed a 21-gene prognostic model. The risk scores were highly correlated with multiple immune cells and common anti-tumour drugs. Furthermore, the risk score was identified as an independent prognostic factor for NB. In this study, I constructed and validated a prognostic signature based on epithelial marker genes, which may provide useful information on the development and prognosis of NB.
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spelling pubmed-106634762023-11-21 Exploration of the molecular mechanism of intercellular communication in paediatric neuroblastoma by single-cell sequencing Chu, Jing Sci Rep Article Neuroblastoma (NB) is an embryonic tumour that originates in the sympathetic nervous system and occurs most often in infants and children under 2 years of age. Moreover, it is the most common extracranial solid tumour in children. Increasing studies suggest that intercellular communication within the tumour microenvironment is closely related to tumour development. This study aimed to construct a prognosis-related intercellular communication-associated genes model by single-cell sequencing and transcriptome sequencing to predict the prognosis of patients with NB for precise management. Single-cell data from patients with NB were downloaded from the gene expression omnibus database for comprehensive analysis. Furthermore, prognosis-related genes were screened in the TARGET database based on epithelial cell marker genes through a combination of Cox regression and Lasso regression analyses, using GSE62564 and GSE85047 for external validation. The patients’ risk scores were calculated, followed by immune infiltration analysis, drug sensitivity analysis, and enrichment analysis of risk scores, which were conducted for the prognostic model. I used the Lasso regression feature selection algorithm to screen characteristic genes in NB and developed a 21-gene prognostic model. The risk scores were highly correlated with multiple immune cells and common anti-tumour drugs. Furthermore, the risk score was identified as an independent prognostic factor for NB. In this study, I constructed and validated a prognostic signature based on epithelial marker genes, which may provide useful information on the development and prognosis of NB. Nature Publishing Group UK 2023-11-21 /pmc/articles/PMC10663476/ /pubmed/37990103 http://dx.doi.org/10.1038/s41598-023-47796-0 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Chu, Jing
Exploration of the molecular mechanism of intercellular communication in paediatric neuroblastoma by single-cell sequencing
title Exploration of the molecular mechanism of intercellular communication in paediatric neuroblastoma by single-cell sequencing
title_full Exploration of the molecular mechanism of intercellular communication in paediatric neuroblastoma by single-cell sequencing
title_fullStr Exploration of the molecular mechanism of intercellular communication in paediatric neuroblastoma by single-cell sequencing
title_full_unstemmed Exploration of the molecular mechanism of intercellular communication in paediatric neuroblastoma by single-cell sequencing
title_short Exploration of the molecular mechanism of intercellular communication in paediatric neuroblastoma by single-cell sequencing
title_sort exploration of the molecular mechanism of intercellular communication in paediatric neuroblastoma by single-cell sequencing
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10663476/
https://www.ncbi.nlm.nih.gov/pubmed/37990103
http://dx.doi.org/10.1038/s41598-023-47796-0
work_keys_str_mv AT chujing explorationofthemolecularmechanismofintercellularcommunicationinpaediatricneuroblastomabysinglecellsequencing