NDLI: MarVis-Pathway: integrative and exploratory pathway analysis of non-targeted metabolomics data

Content Provider	Springer Nature Link
Author	Kaever, Alexander Landesfeind, Manuel Feussner, Kirstin Mosblech, Alina Heilmann, Ingo Morgenstern, Burkhard Feussner, Ivo Meinicke, Peter
Copyright Year	2014
Abstract	A central aim in the evaluation of non-targeted metabolomics data is the detection of intensity patterns that differ between experimental conditions as well as the identification of the underlying metabolites and their association with metabolic pathways. In this context, the identification of metabolites based on non-targeted mass spectrometry data is a major bottleneck. In many applications, this identification needs to be guided by expert knowledge and interactive tools for exploratory data analysis can significantly support this process. Additionally, the integration of data from other omics platforms, such as DNA microarray-based transcriptomics, can provide valuable hints and thereby facilitate the identification of metabolites via the reconstruction of related metabolic pathways. We here introduce the MarVis-Pathway tool, which allows the user to identify metabolites by annotation of pathways from cross-omics data. The analysis is supported by an extensive framework for pathway enrichment and meta-analysis. The tool allows the mapping of data set features by ID, name, and accurate mass, and can incorporate information from adduct and isotope correction of mass spectrometry data. MarVis-Pathway was integrated in the MarVis-Suite ( http://marvis.gobics.de ), which features the seamless highly interactive filtering, combination, clustering, and visualization of omics data sets. The functionality of the new software tool is illustrated using combined mass spectrometry and DNA microarray data. This application confirms jasmonate biosynthesis as important metabolic pathway that is upregulated during the wound response of Arabidopsis plants.
Starting Page	764
Ending Page	777
Page Count	14
File Format	PDF
ISSN	15733882
Journal	Metabolomics
Volume Number	11
Issue Number	3
e-ISSN	15733890
Language	English
Publisher	Springer US
Publisher Date	2014-10-10
Publisher Institution	Metabolomics Society
Publisher Place	New York
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Metabolomics Metabolic fingerprinting Mass spectrometry Metabolic pathways Set enrichment analysis Transcriptomics Biochemistry Molecular Medicine Cell Biology Developmental Biology Biomedicine general
Content Type	Text
Resource Type	Article
Subject	Endocrinology, Diabetes and Metabolism Clinical Biochemistry Biochemistry

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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