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Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray

The aim of the present study was to identify the target genes of cediranib and the associated signaling pathways in alveolar soft part sarcoma (ASPS). A microarray dataset (GSE32569) was obtained from the Gene Expression Omnibus database. The R software package was used for data normalization and sc...

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Autores principales: Jiang, Wenhua, Liu, Pengfei, Li, Xiaodong, Wang, Ping
Formato: Online Artículo Texto
Lenguaje:English
Publicado: D.A. Spandidos 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5403492/
https://www.ncbi.nlm.nih.gov/pubmed/28454442
http://dx.doi.org/10.3892/ol.2017.5779
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author Jiang, Wenhua
Liu, Pengfei
Li, Xiaodong
Wang, Ping
author_facet Jiang, Wenhua
Liu, Pengfei
Li, Xiaodong
Wang, Ping
author_sort Jiang, Wenhua
collection PubMed
description The aim of the present study was to identify the target genes of cediranib and the associated signaling pathways in alveolar soft part sarcoma (ASPS). A microarray dataset (GSE32569) was obtained from the Gene Expression Omnibus database. The R software package was used for data normalization and screening of differentially expressed genes (DEGs). The Database for Annotation, Visualization and Integrated Discovery was used to perform Gene Ontology analysis. Gene Set Enrichment Analysis was performed to obtain the up- and downregulated pathways in ASPS. The Distant Regulatory Elements of co-regulated genes database was used to identify the transcription factors (TFs) that were enriched in the signaling pathways. A protein-protein interaction (PPI) network was constructed using the Search Tool for the Retrieval of Interacting Genes/Proteins database and was visualized using Cytoscape software. A total of 71 DEGs, including 59 upregulated genes and 12 downregulated genes, were identified. Gene sets associated with ASPS were enriched primarily in four signaling pathways: The phenylalanine metabolism pathway, the mitogen-activated protein kinase (MAPK) signaling pathway, the taste transduction pathway and the intestinal immune network for the production of immunoglobulin A. Furthermore, 107 TFs were identified to be enriched in the MAPK signaling pathway. Certain genes, including those coding for Fms-like tyrosine kinase 1, kinase insert domain receptor, E-selectin and platelet-derived growth factor receptor D, that were associated with other genes in the PPI network, were identified. The present study identified certain potential target genes and the associated signaling pathways of cediranib action in ASPS, which may be helpful in understanding the efficacy of cediranib and the development of new targets for cediranib.
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spelling pubmed-54034922017-04-27 Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray Jiang, Wenhua Liu, Pengfei Li, Xiaodong Wang, Ping Oncol Lett Articles The aim of the present study was to identify the target genes of cediranib and the associated signaling pathways in alveolar soft part sarcoma (ASPS). A microarray dataset (GSE32569) was obtained from the Gene Expression Omnibus database. The R software package was used for data normalization and screening of differentially expressed genes (DEGs). The Database for Annotation, Visualization and Integrated Discovery was used to perform Gene Ontology analysis. Gene Set Enrichment Analysis was performed to obtain the up- and downregulated pathways in ASPS. The Distant Regulatory Elements of co-regulated genes database was used to identify the transcription factors (TFs) that were enriched in the signaling pathways. A protein-protein interaction (PPI) network was constructed using the Search Tool for the Retrieval of Interacting Genes/Proteins database and was visualized using Cytoscape software. A total of 71 DEGs, including 59 upregulated genes and 12 downregulated genes, were identified. Gene sets associated with ASPS were enriched primarily in four signaling pathways: The phenylalanine metabolism pathway, the mitogen-activated protein kinase (MAPK) signaling pathway, the taste transduction pathway and the intestinal immune network for the production of immunoglobulin A. Furthermore, 107 TFs were identified to be enriched in the MAPK signaling pathway. Certain genes, including those coding for Fms-like tyrosine kinase 1, kinase insert domain receptor, E-selectin and platelet-derived growth factor receptor D, that were associated with other genes in the PPI network, were identified. The present study identified certain potential target genes and the associated signaling pathways of cediranib action in ASPS, which may be helpful in understanding the efficacy of cediranib and the development of new targets for cediranib. D.A. Spandidos 2017-04 2017-02-24 /pmc/articles/PMC5403492/ /pubmed/28454442 http://dx.doi.org/10.3892/ol.2017.5779 Text en Copyright: © Jiang et al. This is an open access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License (https://creativecommons.org/licenses/by-nc-nd/4.0/) , which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made.
spellingShingle Articles
Jiang, Wenhua
Liu, Pengfei
Li, Xiaodong
Wang, Ping
Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray
title Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray
title_full Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray
title_fullStr Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray
title_full_unstemmed Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray
title_short Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray
title_sort identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray
topic Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5403492/
https://www.ncbi.nlm.nih.gov/pubmed/28454442
http://dx.doi.org/10.3892/ol.2017.5779
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