Identification of genes and pathways potentially related to PHF20 by gene expression profile analysis of glioblastoma U87 cell line
Abstract Background Glioblastoma is the most common and aggressive brain tumor associated with a poor prognosis. Plant homeodomain finger protein 20 (PHF20) is highly expressed in primary human gliomas and its expression is associated with tumor grade. However, the molecular mechanism by which PHF20...
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| Format: | Article |
| Language: | English |
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BMC
2017-10-01
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| Series: | Cancer Cell International |
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| Online Access: | http://link.springer.com/article/10.1186/s12935-017-0459-x |
| _version_ | 1818191390763384832 |
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| author | Tianlong Liu Tiejun Zhang Feng Zhou Jitao Wang Xiaohu Zhai Nan Mu Jongsun Park Minna Liu Wenxing Liu Peijin Shang Yi Ding Aidong Wen Yuwen Li |
| author_facet | Tianlong Liu Tiejun Zhang Feng Zhou Jitao Wang Xiaohu Zhai Nan Mu Jongsun Park Minna Liu Wenxing Liu Peijin Shang Yi Ding Aidong Wen Yuwen Li |
| author_sort | Tianlong Liu |
| collection | DOAJ |
| description | Abstract Background Glioblastoma is the most common and aggressive brain tumor associated with a poor prognosis. Plant homeodomain finger protein 20 (PHF20) is highly expressed in primary human gliomas and its expression is associated with tumor grade. However, the molecular mechanism by which PHF20 regulates glioblastoma remains poorly understood. Methods Genome wide gene expression analysis was performed to identify differentially expressed genes (DEGs) in U87 cells with PHF20 gene knockdown. Gene ontology (GO) and pathway enrichment analyses were performed to investigate the functions and pathways of DEGs. Pathway-net and signal-net analyses were conducted to identify the key genes and pathways related to PHF20. Results Expression of 540 genes, including FEN1 and CCL3, were significantly altered upon PHF20 gene silencing. GO analysis results showed that DEGs were significantly enriched in small molecule metabolic and apoptotic processes. Pathway analysis indicated that DEGs were mainly involved in cancer and metabolic pathways. The MAPK, apoptosis and p53 signaling pathways were identified as the hub pathways in the pathway network, while PLCB1, NRAS and PIK3 s were hub genes in the signaling network. Conclusions Our findings indicated that PHF20 is a pivotal upstream regulator. It affects the occurrence and development of glioma by regulating a series of tumor-related genes, such as FEN1, CCL3, PLCB1, NRAS and PIK3s, and activation of apoptosis signaling pathways. Therefore, PHF20 might be a novel biomarker for early diagnosis, and a potential target for glioblastoma therapies. |
| first_indexed | 2024-12-12T00:13:51Z |
| format | Article |
| id | doaj.art-aa19b0d6496947ce85f49fba1bfd3259 |
| institution | Directory Open Access Journal |
| issn | 1475-2867 |
| language | English |
| last_indexed | 2024-12-12T00:13:51Z |
| publishDate | 2017-10-01 |
| publisher | BMC |
| record_format | Article |
| series | Cancer Cell International |
| spelling | doaj.art-aa19b0d6496947ce85f49fba1bfd32592022-12-22T00:44:53ZengBMCCancer Cell International1475-28672017-10-0117111210.1186/s12935-017-0459-xIdentification of genes and pathways potentially related to PHF20 by gene expression profile analysis of glioblastoma U87 cell lineTianlong Liu0Tiejun Zhang1Feng Zhou2Jitao Wang3Xiaohu Zhai4Nan Mu5Jongsun Park6Minna Liu7Wenxing Liu8Peijin Shang9Yi Ding10Aidong Wen11Yuwen Li12Department of Pharmacy, Xijing Hospital, Fourth Military Medical UniversityDepartment of Neurosurgery, The First Affiliated Hospital of SooChow UniversityDepartment of Neurosurgery, The First Affiliated Hospital of SooChow UniversityDepartment of Pharmacy, The First Affiliated Hospital of SooChow UniversityDepartment of Pharmacy, Xijing Hospital, Fourth Military Medical UniversityState Key Laboratory of Cancer Biology, Department of Biopharmaceutics, School of Pharmacy, Fourth Military Medical UniversityDepartment of Pharmacology, Chungnam National UniversityDepartment of Nephrology, Xijing Hospital, Fourth Military Medical UniversityDepartment of Pharmacy, Xijing Hospital, Fourth Military Medical UniversityDepartment of Pharmacy, Xijing Hospital, Fourth Military Medical UniversityDepartment of Pharmacy, Xijing Hospital, Fourth Military Medical UniversityDepartment of Pharmacy, Xijing Hospital, Fourth Military Medical UniversityDepartment of Pharmacy, Xijing Hospital, Fourth Military Medical UniversityAbstract Background Glioblastoma is the most common and aggressive brain tumor associated with a poor prognosis. Plant homeodomain finger protein 20 (PHF20) is highly expressed in primary human gliomas and its expression is associated with tumor grade. However, the molecular mechanism by which PHF20 regulates glioblastoma remains poorly understood. Methods Genome wide gene expression analysis was performed to identify differentially expressed genes (DEGs) in U87 cells with PHF20 gene knockdown. Gene ontology (GO) and pathway enrichment analyses were performed to investigate the functions and pathways of DEGs. Pathway-net and signal-net analyses were conducted to identify the key genes and pathways related to PHF20. Results Expression of 540 genes, including FEN1 and CCL3, were significantly altered upon PHF20 gene silencing. GO analysis results showed that DEGs were significantly enriched in small molecule metabolic and apoptotic processes. Pathway analysis indicated that DEGs were mainly involved in cancer and metabolic pathways. The MAPK, apoptosis and p53 signaling pathways were identified as the hub pathways in the pathway network, while PLCB1, NRAS and PIK3 s were hub genes in the signaling network. Conclusions Our findings indicated that PHF20 is a pivotal upstream regulator. It affects the occurrence and development of glioma by regulating a series of tumor-related genes, such as FEN1, CCL3, PLCB1, NRAS and PIK3s, and activation of apoptosis signaling pathways. Therefore, PHF20 might be a novel biomarker for early diagnosis, and a potential target for glioblastoma therapies.http://link.springer.com/article/10.1186/s12935-017-0459-xPHF20GlioblastomaU87 cellGene expression profileBioinformatics |
| spellingShingle | Tianlong Liu Tiejun Zhang Feng Zhou Jitao Wang Xiaohu Zhai Nan Mu Jongsun Park Minna Liu Wenxing Liu Peijin Shang Yi Ding Aidong Wen Yuwen Li Identification of genes and pathways potentially related to PHF20 by gene expression profile analysis of glioblastoma U87 cell line Cancer Cell International PHF20 Glioblastoma U87 cell Gene expression profile Bioinformatics |
| title | Identification of genes and pathways potentially related to PHF20 by gene expression profile analysis of glioblastoma U87 cell line |
| title_full | Identification of genes and pathways potentially related to PHF20 by gene expression profile analysis of glioblastoma U87 cell line |
| title_fullStr | Identification of genes and pathways potentially related to PHF20 by gene expression profile analysis of glioblastoma U87 cell line |
| title_full_unstemmed | Identification of genes and pathways potentially related to PHF20 by gene expression profile analysis of glioblastoma U87 cell line |
| title_short | Identification of genes and pathways potentially related to PHF20 by gene expression profile analysis of glioblastoma U87 cell line |
| title_sort | identification of genes and pathways potentially related to phf20 by gene expression profile analysis of glioblastoma u87 cell line |
| topic | PHF20 Glioblastoma U87 cell Gene expression profile Bioinformatics |
| url | http://link.springer.com/article/10.1186/s12935-017-0459-x |
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