Expression and gene regulation network of TYMS and BCL2L1 in colorectal cancer based on data mining
Background The purpose of this study was to study the role of thymidylate synthetase (TYMS) and B-cell lymphoma-2 like 1 (BCL2L1) in the occurrence and development of colorectal cancer and its potential regulatory mechanism. Methods The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) we...
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PeerJ Inc.
2021-06-01
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| Online Access: | https://peerj.com/articles/11368.pdf |
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| author | Yanghua Jie Xiaobei Yang Weidong Chen |
| author_facet | Yanghua Jie Xiaobei Yang Weidong Chen |
| author_sort | Yanghua Jie |
| collection | DOAJ |
| description | Background The purpose of this study was to study the role of thymidylate synthetase (TYMS) and B-cell lymphoma-2 like 1 (BCL2L1) in the occurrence and development of colorectal cancer and its potential regulatory mechanism. Methods The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) were analyzed to examine the expression and prognostic value of TYMS and BCL2L1 in colorectal cancer. C-BioPortal analysis was used to detect the TYMS and BCL2L1 alterations. Through The Human Protein Atlas (THPA), the TYMS and BCL2L1 protein levels were also assessed. The protein protein interaction (PPI) network was built using GeneMANIA analysis, while co-expression genes correlated with TYMS and BCL2L1 were identified using LinkedOmics analysis. Finally, we collected clinical samples to verify the expressions of TYMS and BCL2L1 in colorectal cancer. Results TYMS and BCL2L1 were up-regulated, and TYMS and BCL2L1 genomic alterations were not associated with the occurrence of colorectal cancer. TYMS and BCL2L1 were significantly connected with the prognosis of colorectal cancer patients. The genes interacted with TYMS and BCL2L1 were linked to functional networks involving pathway of apoptosis, apoptosis-multiple species, colorectal cancer, platinum drug resistance and p53 signaling pathway. qRT-PCR verification results of TYMS were consistent with the result of TCGA and GEO analysis. Conclusions This study display that data mining can efficiently provide information on expression of TYMS and BCL2L1, correlated genes of TYMS and BCL2L1, core pathways and potential functional networks in colorectal cancer, suggesting that TYMS and BCL2L1 may become new prognostic and therapeutic targets for colorectal cancer. |
| first_indexed | 2024-03-09T07:07:54Z |
| format | Article |
| id | doaj.art-0273b4ef4abf4548869612325e55237b |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T07:07:54Z |
| publishDate | 2021-06-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ |
| spelling | doaj.art-0273b4ef4abf4548869612325e55237b2023-12-03T09:19:02ZengPeerJ Inc.PeerJ2167-83592021-06-019e1136810.7717/peerj.11368Expression and gene regulation network of TYMS and BCL2L1 in colorectal cancer based on data miningYanghua Jie0Xiaobei Yang1Weidong Chen2Department of Radiotherapy center, Affiliated Hospital of Traditional Chinese Medicine, Xinjiang Medical University, Urumqi, ChinaDepartment of Anorectal, Urumqi City Hospital of Traditional Chinese Medicine, Urumqi, ChinaDepartment of Anorectal, Hospital (T.C.M) Affiliated to Southwest Medical University, Luzhou, ChinaBackground The purpose of this study was to study the role of thymidylate synthetase (TYMS) and B-cell lymphoma-2 like 1 (BCL2L1) in the occurrence and development of colorectal cancer and its potential regulatory mechanism. Methods The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) were analyzed to examine the expression and prognostic value of TYMS and BCL2L1 in colorectal cancer. C-BioPortal analysis was used to detect the TYMS and BCL2L1 alterations. Through The Human Protein Atlas (THPA), the TYMS and BCL2L1 protein levels were also assessed. The protein protein interaction (PPI) network was built using GeneMANIA analysis, while co-expression genes correlated with TYMS and BCL2L1 were identified using LinkedOmics analysis. Finally, we collected clinical samples to verify the expressions of TYMS and BCL2L1 in colorectal cancer. Results TYMS and BCL2L1 were up-regulated, and TYMS and BCL2L1 genomic alterations were not associated with the occurrence of colorectal cancer. TYMS and BCL2L1 were significantly connected with the prognosis of colorectal cancer patients. The genes interacted with TYMS and BCL2L1 were linked to functional networks involving pathway of apoptosis, apoptosis-multiple species, colorectal cancer, platinum drug resistance and p53 signaling pathway. qRT-PCR verification results of TYMS were consistent with the result of TCGA and GEO analysis. Conclusions This study display that data mining can efficiently provide information on expression of TYMS and BCL2L1, correlated genes of TYMS and BCL2L1, core pathways and potential functional networks in colorectal cancer, suggesting that TYMS and BCL2L1 may become new prognostic and therapeutic targets for colorectal cancer.https://peerj.com/articles/11368.pdfTYMSBCL2L1 colorectal cancerPrognosisFunctional network analysis |
| spellingShingle | Yanghua Jie Xiaobei Yang Weidong Chen Expression and gene regulation network of TYMS and BCL2L1 in colorectal cancer based on data mining PeerJ TYMS BCL2L1 colorectal cancer Prognosis Functional network analysis |
| title | Expression and gene regulation network of TYMS and BCL2L1 in colorectal cancer based on data mining |
| title_full | Expression and gene regulation network of TYMS and BCL2L1 in colorectal cancer based on data mining |
| title_fullStr | Expression and gene regulation network of TYMS and BCL2L1 in colorectal cancer based on data mining |
| title_full_unstemmed | Expression and gene regulation network of TYMS and BCL2L1 in colorectal cancer based on data mining |
| title_short | Expression and gene regulation network of TYMS and BCL2L1 in colorectal cancer based on data mining |
| title_sort | expression and gene regulation network of tyms and bcl2l1 in colorectal cancer based on data mining |
| topic | TYMS BCL2L1 colorectal cancer Prognosis Functional network analysis |
| url | https://peerj.com/articles/11368.pdf |
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