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Development and evaluation of a colorectal cancer screening method using machine learning‐based gut microbiota analysis
Accumulating evidence indicates that alterations of gut microbiota are associated with colorectal cancer (CRC). Therefore, the use of gut microbiota for the diagnosis of CRC has received attention. Recently, several studies have been conducted to detect the differences in the gut microbiota between...
Autores principales: | , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9385600/ https://www.ncbi.nlm.nih.gov/pubmed/35318827 http://dx.doi.org/10.1002/cam4.4671 |
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author | Konishi, Yusuke Okumura, Shintaro Matsumoto, Tomonori Itatani, Yoshiro Nishiyama, Tsuyoshi Okazaki, Yuki Shibutani, Masatsune Ohtani, Naoko Nagahara, Hisashi Obama, Kazutaka Ohira, Masaichi Sakai, Yoshiharu Nagayama, Satoshi Hara, Eiji |
author_facet | Konishi, Yusuke Okumura, Shintaro Matsumoto, Tomonori Itatani, Yoshiro Nishiyama, Tsuyoshi Okazaki, Yuki Shibutani, Masatsune Ohtani, Naoko Nagahara, Hisashi Obama, Kazutaka Ohira, Masaichi Sakai, Yoshiharu Nagayama, Satoshi Hara, Eiji |
author_sort | Konishi, Yusuke |
collection | PubMed |
description | Accumulating evidence indicates that alterations of gut microbiota are associated with colorectal cancer (CRC). Therefore, the use of gut microbiota for the diagnosis of CRC has received attention. Recently, several studies have been conducted to detect the differences in the gut microbiota between healthy individuals and CRC patients using machine learning‐based gut bacterial DNA meta‐sequencing analysis, and to use this information for the development of CRC diagnostic model. However, to date, most studies had small sample sizes and/or only cross‐validated using the training dataset that was used to create the diagnostic model, rather than validated using an independent test dataset. Since machine learning‐based diagnostic models cause overfitting if the sample size is small and/or an independent test dataset is not used for validation, the reliability of these diagnostic models needs to be interpreted with caution. To circumvent these problems, here we have established a new machine learning‐based CRC diagnostic model using the gut microbiota as an indicator. Validation using independent test datasets showed that the true positive rate of our CRC diagnostic model increased substantially as CRC progressed from Stage I to more than 60% for CRC patients more advanced than Stage II when the false positive rate was set around 8%. Moreover, there was no statistically significant difference in the true positive rate between samples collected in different cities or in any part of the colorectum. These results reveal the possibility of the practical application of gut microbiota‐based CRC screening tests. |
format | Online Article Text |
id | pubmed-9385600 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-93856002022-08-19 Development and evaluation of a colorectal cancer screening method using machine learning‐based gut microbiota analysis Konishi, Yusuke Okumura, Shintaro Matsumoto, Tomonori Itatani, Yoshiro Nishiyama, Tsuyoshi Okazaki, Yuki Shibutani, Masatsune Ohtani, Naoko Nagahara, Hisashi Obama, Kazutaka Ohira, Masaichi Sakai, Yoshiharu Nagayama, Satoshi Hara, Eiji Cancer Med Research Articles Accumulating evidence indicates that alterations of gut microbiota are associated with colorectal cancer (CRC). Therefore, the use of gut microbiota for the diagnosis of CRC has received attention. Recently, several studies have been conducted to detect the differences in the gut microbiota between healthy individuals and CRC patients using machine learning‐based gut bacterial DNA meta‐sequencing analysis, and to use this information for the development of CRC diagnostic model. However, to date, most studies had small sample sizes and/or only cross‐validated using the training dataset that was used to create the diagnostic model, rather than validated using an independent test dataset. Since machine learning‐based diagnostic models cause overfitting if the sample size is small and/or an independent test dataset is not used for validation, the reliability of these diagnostic models needs to be interpreted with caution. To circumvent these problems, here we have established a new machine learning‐based CRC diagnostic model using the gut microbiota as an indicator. Validation using independent test datasets showed that the true positive rate of our CRC diagnostic model increased substantially as CRC progressed from Stage I to more than 60% for CRC patients more advanced than Stage II when the false positive rate was set around 8%. Moreover, there was no statistically significant difference in the true positive rate between samples collected in different cities or in any part of the colorectum. These results reveal the possibility of the practical application of gut microbiota‐based CRC screening tests. John Wiley and Sons Inc. 2022-03-22 /pmc/articles/PMC9385600/ /pubmed/35318827 http://dx.doi.org/10.1002/cam4.4671 Text en © 2022 The Authors. Cancer Medicine published by John Wiley & Sons Ltd. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Articles Konishi, Yusuke Okumura, Shintaro Matsumoto, Tomonori Itatani, Yoshiro Nishiyama, Tsuyoshi Okazaki, Yuki Shibutani, Masatsune Ohtani, Naoko Nagahara, Hisashi Obama, Kazutaka Ohira, Masaichi Sakai, Yoshiharu Nagayama, Satoshi Hara, Eiji Development and evaluation of a colorectal cancer screening method using machine learning‐based gut microbiota analysis |
title | Development and evaluation of a colorectal cancer screening method using machine learning‐based gut microbiota analysis |
title_full | Development and evaluation of a colorectal cancer screening method using machine learning‐based gut microbiota analysis |
title_fullStr | Development and evaluation of a colorectal cancer screening method using machine learning‐based gut microbiota analysis |
title_full_unstemmed | Development and evaluation of a colorectal cancer screening method using machine learning‐based gut microbiota analysis |
title_short | Development and evaluation of a colorectal cancer screening method using machine learning‐based gut microbiota analysis |
title_sort | development and evaluation of a colorectal cancer screening method using machine learning‐based gut microbiota analysis |
topic | Research Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9385600/ https://www.ncbi.nlm.nih.gov/pubmed/35318827 http://dx.doi.org/10.1002/cam4.4671 |
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