Literature DB >> 36162120

Avoiding the Misuse of Pathway Analysis Tools in Environmental Metabolomics.

Cecilia Wieder1, Jacob G Bundy1, Clément Frainay2, Nathalie Poupin2, Pablo Rodríguez-Mier2, Florence Vinson2, Juliette Cooke2, Rachel P J Lai3, Fabien Jourdan2,4, Timothy M D Ebbels1.   

Abstract

Entities:  

Keywords:  enrichment analysis; environmental metabolomics; metabolic pathway; metabolomics; metabonomics; over-representation analysis; pathway analysis

Mesh：

Year:  2022        PMID： 36162120      PMCID： PMC9583613          DOI： 10.1021/acs.est.2c05588

Source DB:  PubMed          Journal:  Environ Sci Technol        ISSN： 0013-936X            Impact factor:   11.357


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  7 in total

1.  The use and misuse of biomarkers in ecotoxicology.

Authors:  Valery E Forbes; Annemette Palmqvist; Lis Bach
Journal:  Environ Toxicol Chem       Date:  2006-01       Impact factor: 3.742

Review 2.  Pathway Analysis for Targeted and Untargeted Metabolomics.

Authors:  Alla Karnovsky; Shuzhao Li
Journal:  Methods Mol Biol       Date:  2020

Review 3.  Metabolic pathways in the post-genome era.

Authors:  Jason A Papin; Nathan D Price; Sharon J Wiback; David A Fell; Bernhard O Palsson
Journal:  Trends Biochem Sci       Date:  2003-05       Impact factor: 13.807

4.  MetaboAnalyst 5.0: narrowing the gap between raw spectra and functional insights.

Authors:  Zhiqiang Pang; Jasmine Chong; Guangyan Zhou; David Anderson de Lima Morais; Le Chang; Michel Barrette; Carol Gauthier; Pierre-Étienne Jacques; Shuzhao Li; Jianguo Xia
Journal:  Nucleic Acids Res       Date:  2021-05-21       Impact factor: 16.971

5.  Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data.

Authors:  Anna Marco-Ramell; Magali Palau-Rodriguez; Ania Alay; Sara Tulipani; Mireia Urpi-Sarda; Alex Sanchez-Pla; Cristina Andres-Lacueva
Journal:  BMC Bioinformatics       Date:  2018-01-02       Impact factor: 3.169

6.  Pathway analysis in metabolomics: Recommendations for the use of over-representation analysis.

Authors:  Cecilia Wieder; Clément Frainay; Nathalie Poupin; Pablo Rodríguez-Mier; Florence Vinson; Juliette Cooke; Rachel Pj Lai; Jacob G Bundy; Fabien Jourdan; Timothy Ebbels
Journal:  PLoS Comput Biol       Date:  2021-09-07       Impact factor: 4.475

7.  'Systems toxicology' approach identifies coordinated metabolic responses to copper in a terrestrial non-model invertebrate, the earthworm Lumbricus rubellus.

Authors:  Jacob G Bundy; Jasmin K Sidhu; Faisal Rana; David J Spurgeon; Claus Svendsen; Jodie F Wren; Stephen R Stürzenbaum; A John Morgan; Peter Kille
Journal:  BMC Biol       Date:  2008-06-03       Impact factor: 7.431
  7 in total

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