Human Gut Microbiome-Based Knowledgebase as a Biomarker Screening Tool to Improve the Predicted Probability for Colorectal Cancer
Colorectal cancer (CRC) is a common clinical malignancy globally ranked as the fourth leading cause of cancer mortality. Some microbes are known to contribute to adenoma-carcinoma transition and possess diagnostic potential. Advances in high-throughput sequencing technology and functional studies ha...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2020-11-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2020.596027/full |
| _version_ | 1818341343041159168 |
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| author | Zhongkun Zhou Shiqiang Ge Yang Li Wantong Ma Yuheng Liu Shujian Hu Rentao Zhang Yunhao Ma Kangjia Du Ashikujaman Syed Peng Chen |
| author_facet | Zhongkun Zhou Shiqiang Ge Yang Li Wantong Ma Yuheng Liu Shujian Hu Rentao Zhang Yunhao Ma Kangjia Du Ashikujaman Syed Peng Chen |
| author_sort | Zhongkun Zhou |
| collection | DOAJ |
| description | Colorectal cancer (CRC) is a common clinical malignancy globally ranked as the fourth leading cause of cancer mortality. Some microbes are known to contribute to adenoma-carcinoma transition and possess diagnostic potential. Advances in high-throughput sequencing technology and functional studies have provided significant insights into the landscape of the gut microbiome and the fundamental roles of its components in carcinogenesis. Integration of scattered knowledge is highly beneficial for future progress. In this study, literature review and information extraction were performed, with the aim of integrating the available data resources and facilitating comparative research. A knowledgebase of the human CRC microbiome was compiled to facilitate understanding of diagnosis, and the global signatures of CRC microbes, sample types, algorithms, differential microorganisms and various panels of markers plus their diagnostic performance were evaluated based on statistical and phylogenetic analyses. Additionally, prospects about current changelings and solution strategies were outlined for identifying future research directions. This type of data integration strategy presents an effective platform for inquiry and comparison of relevant information, providing a tool for further study about CRC-related microbes and exploration of factors promoting clinical transformation (available at: http://gsbios.com/index/experimental/dts_ mben?id=1). |
| first_indexed | 2024-12-13T15:57:17Z |
| format | Article |
| id | doaj.art-f02807afcb67497d99b2c6f2e4ade831 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-13T15:57:17Z |
| publishDate | 2020-11-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-f02807afcb67497d99b2c6f2e4ade8312022-12-21T23:39:17ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2020-11-011110.3389/fmicb.2020.596027596027Human Gut Microbiome-Based Knowledgebase as a Biomarker Screening Tool to Improve the Predicted Probability for Colorectal CancerZhongkun Zhou0Shiqiang Ge1Yang Li2Wantong Ma3Yuheng Liu4Shujian Hu5Rentao Zhang6Yunhao Ma7Kangjia Du8Ashikujaman Syed9Peng Chen10School of Pharmacy, Lanzhou University, Lanzhou, ChinaDepartment of Electronic Information Engineering, Lanzhou Vocational Technical College, Lanzhou, ChinaSchool of Pharmacy, Lanzhou University, Lanzhou, ChinaSchool of Pharmacy, Lanzhou University, Lanzhou, ChinaSchool of Pharmacy, Lanzhou University, Lanzhou, ChinaSchool of Pharmacy, Lanzhou University, Lanzhou, ChinaSchool of Pharmacy, Lanzhou University, Lanzhou, ChinaSchool of Pharmacy, Lanzhou University, Lanzhou, ChinaSchool of Pharmacy, Lanzhou University, Lanzhou, ChinaSchool of Pharmacy, Lanzhou University, Lanzhou, ChinaSchool of Pharmacy, Lanzhou University, Lanzhou, ChinaColorectal cancer (CRC) is a common clinical malignancy globally ranked as the fourth leading cause of cancer mortality. Some microbes are known to contribute to adenoma-carcinoma transition and possess diagnostic potential. Advances in high-throughput sequencing technology and functional studies have provided significant insights into the landscape of the gut microbiome and the fundamental roles of its components in carcinogenesis. Integration of scattered knowledge is highly beneficial for future progress. In this study, literature review and information extraction were performed, with the aim of integrating the available data resources and facilitating comparative research. A knowledgebase of the human CRC microbiome was compiled to facilitate understanding of diagnosis, and the global signatures of CRC microbes, sample types, algorithms, differential microorganisms and various panels of markers plus their diagnostic performance were evaluated based on statistical and phylogenetic analyses. Additionally, prospects about current changelings and solution strategies were outlined for identifying future research directions. This type of data integration strategy presents an effective platform for inquiry and comparison of relevant information, providing a tool for further study about CRC-related microbes and exploration of factors promoting clinical transformation (available at: http://gsbios.com/index/experimental/dts_ mben?id=1).https://www.frontiersin.org/articles/10.3389/fmicb.2020.596027/fullbiomarkerscolorectal cancerdatabasediagnosismicrobiome |
| spellingShingle | Zhongkun Zhou Shiqiang Ge Yang Li Wantong Ma Yuheng Liu Shujian Hu Rentao Zhang Yunhao Ma Kangjia Du Ashikujaman Syed Peng Chen Human Gut Microbiome-Based Knowledgebase as a Biomarker Screening Tool to Improve the Predicted Probability for Colorectal Cancer Frontiers in Microbiology biomarkers colorectal cancer database diagnosis microbiome |
| title | Human Gut Microbiome-Based Knowledgebase as a Biomarker Screening Tool to Improve the Predicted Probability for Colorectal Cancer |
| title_full | Human Gut Microbiome-Based Knowledgebase as a Biomarker Screening Tool to Improve the Predicted Probability for Colorectal Cancer |
| title_fullStr | Human Gut Microbiome-Based Knowledgebase as a Biomarker Screening Tool to Improve the Predicted Probability for Colorectal Cancer |
| title_full_unstemmed | Human Gut Microbiome-Based Knowledgebase as a Biomarker Screening Tool to Improve the Predicted Probability for Colorectal Cancer |
| title_short | Human Gut Microbiome-Based Knowledgebase as a Biomarker Screening Tool to Improve the Predicted Probability for Colorectal Cancer |
| title_sort | human gut microbiome based knowledgebase as a biomarker screening tool to improve the predicted probability for colorectal cancer |
| topic | biomarkers colorectal cancer database diagnosis microbiome |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2020.596027/full |
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