Published online on: February 24, 2017 https://doi.org/10.3892/ol.2017.5779
https://www.spandidos-publications.com/ ... .2017.5779
Abstract
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.
Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray
Re: Identification of target genes of cediranib in alveolar soft part sarcoma using a gene microarray
Learn genetics-
DNA microarray-
“DNA microarray analysis is one of the fastest-growing new technologies in the field of genetic research. Scientists are using DNA microarrays to investigate everything from cancer to pest control. Now you can do your own DNA microarray experiment! Here you will use a DNA microarray to investigate the differences between a healthy cell and a cancer cell.”
Microarray analysis
“The human genome contains approximately 21,000 genes. At any given moment, each of our cells has some combination of these genes turned on, and others are turned off. How do scientists figure out which are on and which are off?
Scientists can answer this question for any cell sample or tissue by gene expression profiling, using a technique called microarray (pronounced MY-crow-ah-ray) analysis.
Microarray analysis involves breaking open a cell, isolating its genetic contents, identifying all the genes that are turned on in that particular cell, and generating a list of those genes.“
http://learn.genetics.utah.edu/content/labs/microarray/
Section from above gene microarray
“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.”
DNA microarray-
“DNA microarray analysis is one of the fastest-growing new technologies in the field of genetic research. Scientists are using DNA microarrays to investigate everything from cancer to pest control. Now you can do your own DNA microarray experiment! Here you will use a DNA microarray to investigate the differences between a healthy cell and a cancer cell.”
Microarray analysis
“The human genome contains approximately 21,000 genes. At any given moment, each of our cells has some combination of these genes turned on, and others are turned off. How do scientists figure out which are on and which are off?
Scientists can answer this question for any cell sample or tissue by gene expression profiling, using a technique called microarray (pronounced MY-crow-ah-ray) analysis.
Microarray analysis involves breaking open a cell, isolating its genetic contents, identifying all the genes that are turned on in that particular cell, and generating a list of those genes.“
http://learn.genetics.utah.edu/content/labs/microarray/
Section from above gene microarray
“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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