HMDB 4.0: the human metabolome database for 2018.
David S. Wishart,Yannick Djoumbou Feunang,Ana Marcu,An Chi Guo,Kevin Y. H. Liang,Rosa Vázquez-Fresno,Tanvir Sajed,Daniel Johnson,Carin Li,Naama Karu,Zinat Sayeeda,Elvis J. Lo,Nazanin Assempour,Mark V. Berjanskii,Sandeep Singhal,David Arndt,Yongjie Liang,Hasan Badran,Jason R. Grant,Arnau Serra-Cayuela,Yifeng Liu,Rupa Mandal,Vanessa Neveu,Allison Pon,Craig Knox,Michael Wilson,Claudine Manach,Augustin Scalbert +27 more
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TLDR
This year's update to the HMDB, HMDB 4.0, represents the most significant upgrade to the database in its history and should greatly enhance its ease of use and its potential applications in nutrition, biochemistry, clinical chemistry, clinical genetics, medicine, and metabolomics science.Abstract:
The Human Metabolome Database or HMDB (www.hmdb.ca) is a web-enabled metabolomic database containing comprehensive information about human metabolites along with their biological roles, physiological concentrations, disease associations, chemical reactions, metabolic pathways, and reference spectra. First described in 2007, the HMDB is now considered the standard metabolomic resource for human metabolic studies. Over the past decade the HMDB has continued to grow and evolve in response to emerging needs for metabolomics researchers and continuing changes in web standards. This year's update, HMDB 4.0, represents the most significant upgrade to the database in its history. For instance, the number of fully annotated metabolites has increased by nearly threefold, the number of experimental spectra has grown by almost fourfold and the number of illustrated metabolic pathways has grown by a factor of almost 60. Significant improvements have also been made to the HMDB's chemical taxonomy, chemical ontology, spectral viewing, and spectral/text searching tools. A great deal of brand new data has also been added to HMDB 4.0. This includes large quantities of predicted MS/MS and GC-MS reference spectral data as well as predicted (physiologically feasible) metabolite structures to facilitate novel metabolite identification. Additional information on metabolite-SNP interactions and the influence of drugs on metabolite levels (pharmacometabolomics) has also been added. Many other important improvements in the content, the interface, and the performance of the HMDB website have been made and these should greatly enhance its ease of use and its potential applications in nutrition, biochemistry, clinical chemistry, clinical genetics, medicine, and metabolomics science.read more
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MetaboAnalyst 4.0: towards more transparent and integrative metabolomics analysis.
Jasmine Chong,Othman Soufan,Carin Li,Iurie Caraus,Shuzhao Li,Guillaume Bourque,David S. Wishart,Jianguo Xia +7 more
TL;DR: The user interface of MetaboAnalyst 4.0 has been reengineered to provide a more modern look and feel, as well as to give more space and flexibility to introduce new functions.
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The Therapeutic Potential of Apigenin.
Bahare Salehi,Alessandro Venditti,Mehdi Sharifi-Rad,Dorota Kregiel,Javad Sharifi-Rad,Alessandra Durazzo,Massimo Lucarini,Antonello Santini,Eliana B. Souto,Ettore Novellino,Hubert Antolak,Elena Azzini,William N. Setzer,Natália Martins +13 more
TL;DR: This work is an updated overview of apigenin, focusing on its health-promoting effects/therapeutic functions and, in particular, results of in vivo research, and an introduction to its chemistry.
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Pathway Based Analysis of Mutation Data Is Efficient for Scoring Target Cancer Drugs.
Marianna A. Zolotovskaia,Maxim Sorokin,Anna A. Emelianova,Nikolay M. Borisov,Denis Kuzmin,Pieter Borger,Andrew Garazha,Anton Buzdin,Anton Buzdin +8 more
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Identification of bioactive metabolites using activity metabolomics
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Polyphenols: A concise overview on the chemistry, occurrence, and human health
Alessandra Durazzo,Massimo Lucarini,Eliana B. Souto,Eliana B. Souto,Carla Cicala,Elisabetta Caiazzo,Angelo A. Izzo,Ettore Novellino,Antonello Santini +8 more
TL;DR: This review gives an updated picture of each class of phenolic compounds and their properties and the use of current existing databases of bioactive compounds including polyphenols is described as key tools for human health research.
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