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Explore association of genes in PDL1/PD1 pathway to radiotherapy survival benefit based on interaction model strategy
PURPOSE: To explore the association of genes in “PD-L1 expression and PD-1 check point pathway in cancer” to radiotherapy survival benefit. METHODS AND MATERIALS: Gene expression data and clinical information of cancers were downloaded from TCGA. Radiotherapy survival benefit was defined based on in...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8600865/ https://www.ncbi.nlm.nih.gov/pubmed/34794456 http://dx.doi.org/10.1186/s13014-021-01951-x |
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author | Shen, Junjie Liu, Jingfang Li, Huijun Bai, Lu Du, Zixuan Geng, Ruirui Cao, Jianping Sun, Peng Tang, Zaixiang |
author_facet | Shen, Junjie Liu, Jingfang Li, Huijun Bai, Lu Du, Zixuan Geng, Ruirui Cao, Jianping Sun, Peng Tang, Zaixiang |
author_sort | Shen, Junjie |
collection | PubMed |
description | PURPOSE: To explore the association of genes in “PD-L1 expression and PD-1 check point pathway in cancer” to radiotherapy survival benefit. METHODS AND MATERIALS: Gene expression data and clinical information of cancers were downloaded from TCGA. Radiotherapy survival benefit was defined based on interaction model. Fast backward multivariate Cox regression was performed using stacking multiple interpolation data to identify radio-sensitive (RS) genes. RESULTS: Among the 73 genes in PD-L1/PD-1 pathway, we identified 24 RS genes in BRCA data set, 25 RS genes in STAD data set and 20 RS genes in HNSC data set, with some crossover genes. Theoretically, there are two types of RS genes. The expression level of Type I RS genes did not affect patients' overall survival (OS), but when receiving radiotherapy, patients with different expression level of Type I RS genes had varied survival benefit. Oppositely, Type II RS genes affected patients' OS. And when receiving radiotherapy, those with lower OS could benefit a lot. Type II RS genes in BRCA had strong positive correlation and closely biological interactions. When performing cluster analysis using these related Type II RS genes, patients could be divided into RS group and non-RS group in BRCA and METABRIC data sets. CONCLUSIONS: Our study explored potential radio-sensitive biomarkers of several main cancer types in an important tumor immune checkpoint pathway and revealed a strong association between this pathway and radiotherapy survival benefit. New types of RS genes could be identified based on expanded definition to RS genes. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s13014-021-01951-x. |
format | Online Article Text |
id | pubmed-8600865 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-86008652021-11-19 Explore association of genes in PDL1/PD1 pathway to radiotherapy survival benefit based on interaction model strategy Shen, Junjie Liu, Jingfang Li, Huijun Bai, Lu Du, Zixuan Geng, Ruirui Cao, Jianping Sun, Peng Tang, Zaixiang Radiat Oncol Research PURPOSE: To explore the association of genes in “PD-L1 expression and PD-1 check point pathway in cancer” to radiotherapy survival benefit. METHODS AND MATERIALS: Gene expression data and clinical information of cancers were downloaded from TCGA. Radiotherapy survival benefit was defined based on interaction model. Fast backward multivariate Cox regression was performed using stacking multiple interpolation data to identify radio-sensitive (RS) genes. RESULTS: Among the 73 genes in PD-L1/PD-1 pathway, we identified 24 RS genes in BRCA data set, 25 RS genes in STAD data set and 20 RS genes in HNSC data set, with some crossover genes. Theoretically, there are two types of RS genes. The expression level of Type I RS genes did not affect patients' overall survival (OS), but when receiving radiotherapy, patients with different expression level of Type I RS genes had varied survival benefit. Oppositely, Type II RS genes affected patients' OS. And when receiving radiotherapy, those with lower OS could benefit a lot. Type II RS genes in BRCA had strong positive correlation and closely biological interactions. When performing cluster analysis using these related Type II RS genes, patients could be divided into RS group and non-RS group in BRCA and METABRIC data sets. CONCLUSIONS: Our study explored potential radio-sensitive biomarkers of several main cancer types in an important tumor immune checkpoint pathway and revealed a strong association between this pathway and radiotherapy survival benefit. New types of RS genes could be identified based on expanded definition to RS genes. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s13014-021-01951-x. BioMed Central 2021-11-18 /pmc/articles/PMC8600865/ /pubmed/34794456 http://dx.doi.org/10.1186/s13014-021-01951-x Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis 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/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Shen, Junjie Liu, Jingfang Li, Huijun Bai, Lu Du, Zixuan Geng, Ruirui Cao, Jianping Sun, Peng Tang, Zaixiang Explore association of genes in PDL1/PD1 pathway to radiotherapy survival benefit based on interaction model strategy |
title | Explore association of genes in PDL1/PD1 pathway to radiotherapy survival benefit based on interaction model strategy |
title_full | Explore association of genes in PDL1/PD1 pathway to radiotherapy survival benefit based on interaction model strategy |
title_fullStr | Explore association of genes in PDL1/PD1 pathway to radiotherapy survival benefit based on interaction model strategy |
title_full_unstemmed | Explore association of genes in PDL1/PD1 pathway to radiotherapy survival benefit based on interaction model strategy |
title_short | Explore association of genes in PDL1/PD1 pathway to radiotherapy survival benefit based on interaction model strategy |
title_sort | explore association of genes in pdl1/pd1 pathway to radiotherapy survival benefit based on interaction model strategy |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8600865/ https://www.ncbi.nlm.nih.gov/pubmed/34794456 http://dx.doi.org/10.1186/s13014-021-01951-x |
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