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MagMD: Database summarizing the metabolic action of gut microbiota to drugs
An increasing number of studies have reported that microbiome can affect drug response by altering pharmacokinetics and pharmacodynamics of formation of toxic metabolites. With the development of metagenomic sequencing, gut microbial composition as well as the metabolic function are drawing more and...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Research Network of Computational and Structural Biotechnology
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9685347/ https://www.ncbi.nlm.nih.gov/pubmed/36467581 http://dx.doi.org/10.1016/j.csbj.2022.11.021 |
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author | Zhou, Jiajia Ouyang, Jian Gao, Zihao Qin, Haipeng Jun, Wu Shi, Tieliu |
author_facet | Zhou, Jiajia Ouyang, Jian Gao, Zihao Qin, Haipeng Jun, Wu Shi, Tieliu |
author_sort | Zhou, Jiajia |
collection | PubMed |
description | An increasing number of studies have reported that microbiome can affect drug response by altering pharmacokinetics and pharmacodynamics of formation of toxic metabolites. With the development of metagenomic sequencing, gut microbial composition as well as the metabolic function are drawing more and more attention for the patient stratification. The established microbiota databases provide useful information about the gut microbe-drug interactions. However, these databases generally lacked the detailed effects on substance and the metabolites, which are helpful in elucidating the mechanisms underlying drug biotransformation and personalized medicine. To address these issues, in this study, we developed Metabolic action of gut Microbiota to Drugs (MagMD), a database and a web-service covering 32, 678 records of interactions between 2,146 gut microbes, 36 enzymes and 219 substrates (mainly drugs). The detailed annotations for each entry, including the taxonomic level of microbes, the molecular form and PubChem ID of drugs from PubChem Compound Database, types of microbial secreted enzymes and the original reference links can also be accessed from the web service. AVAILABILITY AND IMPLEMENTATION: MagMD is a publicly available resource, constantly updated. It has an intuitive web interface and can be freely accessed at http://www.unimd.org/magmd. |
format | Online Article Text |
id | pubmed-9685347 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Research Network of Computational and Structural Biotechnology |
record_format | MEDLINE/PubMed |
spelling | pubmed-96853472022-12-02 MagMD: Database summarizing the metabolic action of gut microbiota to drugs Zhou, Jiajia Ouyang, Jian Gao, Zihao Qin, Haipeng Jun, Wu Shi, Tieliu Comput Struct Biotechnol J Data Article An increasing number of studies have reported that microbiome can affect drug response by altering pharmacokinetics and pharmacodynamics of formation of toxic metabolites. With the development of metagenomic sequencing, gut microbial composition as well as the metabolic function are drawing more and more attention for the patient stratification. The established microbiota databases provide useful information about the gut microbe-drug interactions. However, these databases generally lacked the detailed effects on substance and the metabolites, which are helpful in elucidating the mechanisms underlying drug biotransformation and personalized medicine. To address these issues, in this study, we developed Metabolic action of gut Microbiota to Drugs (MagMD), a database and a web-service covering 32, 678 records of interactions between 2,146 gut microbes, 36 enzymes and 219 substrates (mainly drugs). The detailed annotations for each entry, including the taxonomic level of microbes, the molecular form and PubChem ID of drugs from PubChem Compound Database, types of microbial secreted enzymes and the original reference links can also be accessed from the web service. AVAILABILITY AND IMPLEMENTATION: MagMD is a publicly available resource, constantly updated. It has an intuitive web interface and can be freely accessed at http://www.unimd.org/magmd. Research Network of Computational and Structural Biotechnology 2022-11-12 /pmc/articles/PMC9685347/ /pubmed/36467581 http://dx.doi.org/10.1016/j.csbj.2022.11.021 Text en © 2022 The Authors https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/). |
spellingShingle | Data Article Zhou, Jiajia Ouyang, Jian Gao, Zihao Qin, Haipeng Jun, Wu Shi, Tieliu MagMD: Database summarizing the metabolic action of gut microbiota to drugs |
title | MagMD: Database summarizing the metabolic action of gut microbiota to drugs |
title_full | MagMD: Database summarizing the metabolic action of gut microbiota to drugs |
title_fullStr | MagMD: Database summarizing the metabolic action of gut microbiota to drugs |
title_full_unstemmed | MagMD: Database summarizing the metabolic action of gut microbiota to drugs |
title_short | MagMD: Database summarizing the metabolic action of gut microbiota to drugs |
title_sort | magmd: database summarizing the metabolic action of gut microbiota to drugs |
topic | Data Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9685347/ https://www.ncbi.nlm.nih.gov/pubmed/36467581 http://dx.doi.org/10.1016/j.csbj.2022.11.021 |
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