MetaboAnalyst 4.0: towards more transparent and integrative metabolomics analysis

Nucleic Acids Research
Jasmine ChongJianguo Xia

Abstract

We present a new update to MetaboAnalyst (version 4.0) for comprehensive metabolomic data analysis, interpretation, and integration with other omics data. Since the last major update in 2015, MetaboAnalyst has continued to evolve based on user feedback and technological advancements in the field. For this year's update, four new key features have been added to MetaboAnalyst 4.0, including: (1) real-time R command tracking and display coupled with the release of a companion MetaboAnalystR package; (2) a MS Peaks to Pathways module for prediction of pathway activity from untargeted mass spectral data using the mummichog algorithm; (3) a Biomarker Meta-analysis module for robust biomarker identification through the combination of multiple metabolomic datasets and (4) a Network Explorer module for integrative analysis of metabolomics, metagenomics, and/or transcriptomics data. 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. The underlying knowledgebases (compound libraries, metabolite sets, and metabolic pathways) have also been updated based on the latest data from the Human Metabolome Database (HMDB). A ...Continue Reading

References

Oct 4, 2005·Proceedings of the National Academy of Sciences of the United States of America·Aravind SubramanianJill P Mesirov
Jan 13, 2006·Therapeutic Drug Monitoring·Colin A SmithGary Siuzdak
Apr 4, 2008·Nature·Samir M HanashVitor M Faca
May 12, 2009·Nucleic Acids Research·Jianguo XiaDavid S Wishart
Jul 16, 2010·Bioinformatics·Jianguo Xia, David S Wishart
Jan 21, 2012·Nucleic Acids Research·George C TsengEleanor Feingold
Mar 23, 2012·Nature Reviews. Molecular Cell Biology·Gary J PattiGary Siuzdak
May 4, 2012·Nucleic Acids Research·Jianguo XiaDavid S Wishart
Jul 27, 2012·Metabolomics : Official Journal of the Metabolomic Society·Arjen Lommen, Harrie J Kools
Nov 28, 2012·Nucleic Acids Research·Janna HastingsChristoph Steinbeck
Apr 2, 2013·Metabolomics : Official Journal of the Metabolomic Society·Jianguo XiaDavid S Wishart
Jun 15, 2013·Nucleic Acids Research·Jianguo XiaRobert E W Hancock
Jul 19, 2013·PLoS Computational Biology·Shuzhao LiBali Pulendran
Nov 10, 2013·Nucleic Acids Research·Timothy JewisonDavid S Wishart
Jun 27, 2014·American Journal of Epidemiology·Ioanna TzoulakiJohn P A Ioannidis
Dec 21, 2014·Bioinformatics·Franck GiacomoniChristophe Caron
Jan 15, 2015·Nature Reviews. Genetics·Marylyn D RitchieDokyoon Kim
Apr 22, 2015·Nucleic Acids Research·Jianguo XiaDavid S Wishart
May 29, 2015·PloS One·Siamak RavanbakhshDavid S Wishart
Sep 25, 2015·Nucleic Acids Research·Sunghwan KimStephen H Bryant
Mar 10, 2016·Scientific Reports·Giuseppe PagliaAlfonso Di Costanzo
Mar 17, 2016·Nature Reviews. Molecular Cell Biology·Caroline H JohnsonGary Siuzdak
Jul 19, 2016·Nature Cell Biology·Andrew G CoxWolfram Goessling
Aug 31, 2016·Nature Methods·Lina WadiJüri Reimand
Sep 8, 2016·EMBO Molecular Medicine·Jermaine GoveiaPeter Carmeliet
Dec 3, 2016·Nucleic Acids Research·Minoru KanehisaKanae Morishima
Apr 4, 2017·The Journal of Infectious Diseases·Lisa A ReynoldsB Brett Finlay
Apr 28, 2017·Nature Methods·Tao HuanGary Siuzdak
Nov 16, 2017·Nucleic Acids Research·David S WishartAugustin Scalbert
Jan 3, 2018·BMC Bioinformatics·Anna Marco-RamellCristina Andres-Lacueva

❮ Previous
Next ❯

Citations

May 24, 2018·International Journal of Environmental Research and Public Health·Diana CabreraKarl Fraser
Jan 9, 2019·American Journal of Physiology. Endocrinology and Metabolism·Jacquelyn M WalejkoMaureen Keller-Wood
Mar 13, 2019·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Rosa PerestreloJosé S Câmara
Feb 26, 2019·Journal of the European Academy of Dermatology and Venereology : JEADV·L-L LiuT-C Yang
Feb 26, 2019·Journal of Oral Pathology & Medicine : Official Publication of the International Association of Oral Pathologists and the American Academy of Oral Pathology·Aline Fernanda CruzRicardo Santiago Gomez
Mar 26, 2019·Annual Review of Food Science and Technology·Diana González-Peña, Lorraine Brennan
Mar 29, 2019·Nutrients·Hugo MonrroyFernando Azpiroz
Mar 27, 2019·Metabolites·Jasmine ChongJianguo Xia
Mar 31, 2019·Journal of Analytical Toxicology·Clementine ScholzMarkus R Baumgartner
Apr 17, 2019·Proceedings of the National Academy of Sciences of the United States of America·Jacob S HengJeremy Nathans
Jan 9, 2019·Molecular & Cellular Proteomics : MCP·Joel A CainStuart J Cordwell
Mar 5, 2019·Metabolomics : Official Journal of the Metabolomic Society·Honglun YuanShouwen Chen
Jan 11, 2019·Nutrients·Hugo MonrroyFernando Azpiroz
Mar 9, 2019·Journal of Lipid Research·Stephanie A ShumarRoberta Leonardi
Apr 4, 2019·American Journal of Physiology. Regulatory, Integrative and Comparative Physiology·Thomas Enriquez, Hervé Colinet
Jun 4, 2019·Briefings in Bioinformatics·Juncai PuPeng Xie
Apr 3, 2019·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·Jonathan P GumucioChristopher L Mendias
Jun 9, 2019·Metabolites·Farhana R PinuJacob Jaine
Jun 4, 2019·Applied and Environmental Microbiology·Sara M KleeTimothy W McNellis
Jun 22, 2019·Metabolomics : Official Journal of the Metabolomic Society·Valentina L KouznetsovaIgor F Tsigelny
Jul 11, 2019·Metabolomics : Official Journal of the Metabolomic Society·Ho-Joon LeeCostas A Lyssiotis
Jun 30, 2019·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Luigi BarberiniPierluigi Cocco
Jun 15, 2019·Toxicological Sciences : an Official Journal of the Society of Toxicology·Mireia López-RieraRamiro Jover
May 28, 2019·Drug Metabolism and Disposition : the Biological Fate of Chemicals·David K ScovilleJulia Yue Cui
Jul 20, 2019·Proteomics·Danielle L PetersDaniel Figeys
Aug 2, 2019·Molecular Nutrition & Food Research·Sarah O'ConnorIwona Rudkowska
Jul 20, 2019·Magnetic Resonance in Chemistry : MRC·Liliana López-GarridoNury Pérez-Hernández
Aug 4, 2019·Journal of Experimental Botany·Baoguo DuHeinz Rennenberg
May 6, 2019·Journal of Molecular Medicine : Official Organ of the Gesellschaft Deutscher Naturforscher Und Ärzte·Tatyana N TarasenkoPeter J McGuire
Aug 17, 2018·American Journal of Physiology. Lung Cellular and Molecular Physiology·Charitharth Vivek LalNamasivayam Ambalavanan
Sep 10, 2019·Mass Spectrometry Reviews·Ana Margarida RodriguesCarla António

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