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MetPP specifications

Information


Unique identifier OMICS_23208
Name MetPP
Alternative name METabolomics Profiling Pipeline
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data Some peak lists deconvoluted from the instrument data.
Operating system Unix/Linux
Programming languages MATLAB
Computer skills Advanced
Stability Alpha
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Xiang Zhang

Additional information


MetPP is a part of the MetaOpen tool.

Publication for METabolomics Profiling Pipeline

MetPP citations

 (5)
library_books

Metabolomics Analysis of the Toxic Effects of the Production of Lycopene and Its Precursors

2018
Front Microbiol
PMCID: 5944366
PMID: 29774011
DOI: 10.3389/fmicb.2018.00760

[…] -to-noise (S/N) of 5 for all subpeaks. Peaks were required to have a S/N of 10 and have a minimum similarity score of 800 before assigning a name. Unique mass was used for area and height calculation.MetPP was used to align the samples (). Sample files and a derivatization reagent blank file were uploaded from ChromaTOF. Unknowns were retained during the peak alignment process. The derivatization […]

library_books

From chromatogram to analyte to metabolite. How to pick horses for courses from the massive web resources for mass spectral plant metabolomics

2017
GigaScience
PMCID: 5499862
PMID: 28520864
DOI: 10.1093/gigascience/gix037

[…] he MZmine 2 platform and addresses issues from the first version such as fragment ions that are produced by more than 1 co-eluting components, as well as improved sensitivity and robustness. Finally, MetPP [] is a processing tool that includes normalization and statistical analysis but is directed toward data emanating from the GC × GC–time of flight MS system.Extracting compound mass spectra is a […]

library_books

Interspecies and Intraspecies Analysis of Trehalose Contents and the Biosynthesis Pathway Gene Family Reveals Crucial Roles of Trehalose in Osmotic Stress Tolerance in Cassava

2016
Int J Mol Sci
PMCID: 4964453
PMID: 27420056
DOI: 10.3390/ijms17071077

[…] in yeast (Saccharomyces cerevisiae) []. The TPP family in rice, maize, and Arabidopsis were classified into two clades [,]. However, cassava TPP proteins were classified into three clades (B). Four (MeTPP1–4) were located in Clade A, and four (MeTPP5–8) in Clade B. Interestingly, MeTPP9 and MeTPP10 were not grouped with any TPP proteins from Arabidopsis, rice, and maize, and formed an independent […]

library_books

OVCAR 3 Spheroid Derived Cells Display Distinct Metabolic Profiles

2015
PLoS One
PMCID: 4331360
PMID: 25688563
DOI: 10.1371/journal.pone.0118262

[…] or all subpeaks. Peaks were required to have a S/N of 10 and have a minimum similarity score of 800 before assigning a name. Unique mass was used for area and height calculation.To align the samples, MetPP (http://metaopen.sourceforge.net/metpp.html) was used []. Sample files and a derivatization reagent blank file were uploaded from ChromaTOF. Unknowns were retained during the peak alignment proc […]

library_books

Distinct metabolic responses of an ovarian cancer stem cell line

2014
BMC Syst Biol
PMCID: 4308021
PMID: 25518943
DOI: 10.1186/s12918-014-0134-y

[…] or all subpeaks. Peaks were required to have a S/N of 10 and have a minimum similarity score of 800 before assigning a name. Unique mass was used for area and height calculation.To align the samples, MetPP (http://metaopen.sourceforge.net/metpp.html) was used []. Sample files and a derivatization reagent blank file were uploaded from ChromaTOF. Unknowns were retained during the peak alignment proc […]

Citations

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MetPP institution(s)
Department of Chemistry, University of Louisville, KY, USA; Department of Bioinformatics and Biostatistics, University of Louisville, KY, USA; Department of Pharmacology & Toxicology, University of Louisville, KY, USA; Alcohol Research Center, University of Louisville, KY, USA; Department of Medicine, University of Louisville, KY, USA; Robley Rex Louisville VAMC, Louisville, KY, USA
MetPP funding source(s)
Supported by National Institute of Health (NIH) grants 1RO1GM087735, R21ES021311, P01AA017103, R37AA010762 and 1RC2AA019385, and the VA.

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