Identification and characterization of circRNAs as competing endogenous RNAs for miRNA-mRNA in colorectal cancer
Background Recent studies showed that circRNAs are involved in the biological process of some human cancers. However, little is known about their functions in colorectal cancer (CRC). Methods Here we first revealed the expression profiles of circRNAs in the CRC tissues and the adjacent non-tumorous...
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PeerJ Inc.
2019-09-01
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| author | Wenliang Yuan Sihua Peng Jingyu Wang Cai Wei Zhen Ye Ye Wang Meiliang Wang Hao Xu Shouwen Jiang Dan Sun Chaoxu Dai Linhua Jiang Xiaobo Li |
| author_facet | Wenliang Yuan Sihua Peng Jingyu Wang Cai Wei Zhen Ye Ye Wang Meiliang Wang Hao Xu Shouwen Jiang Dan Sun Chaoxu Dai Linhua Jiang Xiaobo Li |
| author_sort | Wenliang Yuan |
| collection | DOAJ |
| description | Background Recent studies showed that circRNAs are involved in the biological process of some human cancers. However, little is known about their functions in colorectal cancer (CRC). Methods Here we first revealed the expression profiles of circRNAs in the CRC tissues and the adjacent non-tumorous tissues using high-throughput sequencing. The sequence feature, chromosome location, alternative splicing and other characteristics of the circRNAs were also explored. The miRNA and mRNA expression profiles were then obtained by analyzing relevant CRC data retrived from the TCGA database. We obtained and analyzed the competing endogenous RNA (ceRNA) network of the top three pairs of the largest up-regulated and down-regulated circRNAs. Results In this study, we obtained 50,410 circRNAs in the CRC tissue and the adjacent non-tumor tissues, of which 33.7% (16,975) were new, and revealed differential changes in circRNA expression during colorectal carcinogenesis. We have identified six potential key circRNAs (circPIEZO1-3, hsa_circ_0067163, hsa_circ_0140188, hsa_circ_0002632, hsa_circ_0001998 and hsa_circ_0023990) associated with CRC, which play important roles in carcinogenesis as ceRNA for regulation of miRNA-mRNA network. In the subsequent KEGG analysis, several CRC-related pathways were found. Conclusions Our findings advance the understanding of the pathogenesis of CRC from the perspective of circRNAs and provide some circRNAs as candidate diagnostic biomarkers or potential therapeutic targets. |
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| spelling | doaj.art-d92ff3f0681f4e949098fe0c0e374c252023-12-03T11:29:48ZengPeerJ Inc.PeerJ2167-83592019-09-017e760210.7717/peerj.7602Identification and characterization of circRNAs as competing endogenous RNAs for miRNA-mRNA in colorectal cancerWenliang Yuan0Sihua Peng1Jingyu Wang2Cai Wei3Zhen Ye4Ye Wang5Meiliang Wang6Hao Xu7Shouwen Jiang8Dan Sun9Chaoxu Dai10Linhua Jiang11Xiaobo Li12Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, ChinaKey Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, ChinaDepartment of Pathology, The First Affiliated Hospital of Jiaxing University, Jiaxing, ChinaKey Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, ChinaCollege of Engineering, Lishui University, Lishui, ChinaCollege of Engineering, Lishui University, Lishui, ChinaCollege of Engineering, Lishui University, Lishui, ChinaCollege of Engineering, Lishui University, Lishui, ChinaKey Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, ChinaKey Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, ChinaKey Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean University, Shanghai, ChinaSchool of Optical-Electric and Computer Engineering, University of Shanghai for Science and Technology, Shanghai, ChinaCollege of Engineering, Lishui University, Lishui, ChinaBackground Recent studies showed that circRNAs are involved in the biological process of some human cancers. However, little is known about their functions in colorectal cancer (CRC). Methods Here we first revealed the expression profiles of circRNAs in the CRC tissues and the adjacent non-tumorous tissues using high-throughput sequencing. The sequence feature, chromosome location, alternative splicing and other characteristics of the circRNAs were also explored. The miRNA and mRNA expression profiles were then obtained by analyzing relevant CRC data retrived from the TCGA database. We obtained and analyzed the competing endogenous RNA (ceRNA) network of the top three pairs of the largest up-regulated and down-regulated circRNAs. Results In this study, we obtained 50,410 circRNAs in the CRC tissue and the adjacent non-tumor tissues, of which 33.7% (16,975) were new, and revealed differential changes in circRNA expression during colorectal carcinogenesis. We have identified six potential key circRNAs (circPIEZO1-3, hsa_circ_0067163, hsa_circ_0140188, hsa_circ_0002632, hsa_circ_0001998 and hsa_circ_0023990) associated with CRC, which play important roles in carcinogenesis as ceRNA for regulation of miRNA-mRNA network. In the subsequent KEGG analysis, several CRC-related pathways were found. Conclusions Our findings advance the understanding of the pathogenesis of CRC from the perspective of circRNAs and provide some circRNAs as candidate diagnostic biomarkers or potential therapeutic targets.https://peerj.com/articles/7602.pdfcircRNAsHigh-throughput sequencingceRNA networkCRCTCGA |
| spellingShingle | Wenliang Yuan Sihua Peng Jingyu Wang Cai Wei Zhen Ye Ye Wang Meiliang Wang Hao Xu Shouwen Jiang Dan Sun Chaoxu Dai Linhua Jiang Xiaobo Li Identification and characterization of circRNAs as competing endogenous RNAs for miRNA-mRNA in colorectal cancer PeerJ circRNAs High-throughput sequencing ceRNA network CRC TCGA |
| title | Identification and characterization of circRNAs as competing endogenous RNAs for miRNA-mRNA in colorectal cancer |
| title_full | Identification and characterization of circRNAs as competing endogenous RNAs for miRNA-mRNA in colorectal cancer |
| title_fullStr | Identification and characterization of circRNAs as competing endogenous RNAs for miRNA-mRNA in colorectal cancer |
| title_full_unstemmed | Identification and characterization of circRNAs as competing endogenous RNAs for miRNA-mRNA in colorectal cancer |
| title_short | Identification and characterization of circRNAs as competing endogenous RNAs for miRNA-mRNA in colorectal cancer |
| title_sort | identification and characterization of circrnas as competing endogenous rnas for mirna mrna in colorectal cancer |
| topic | circRNAs High-throughput sequencing ceRNA network CRC TCGA |
| url | https://peerj.com/articles/7602.pdf |
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