MetaboMiner statistics

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Citations per year

Number of citations per year for the bioinformatics software tool MetaboMiner
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Tool usage distribution map

This map represents all the scientific publications referring to MetaboMiner per scientific context
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Associated diseases

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Popular tool citations

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Protocols

MetaboMiner specifications

Information


Unique identifier OMICS_02847
Name MetaboMiner
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Jianguo Xia

Publication for MetaboMiner

MetaboMiner citations

 (12)
library_books

Navigating freely available software tools for metabolomics analysis

2017
Metabolomics
PMCID: 5550549
PMID: 28890673
DOI: 10.1007/s11306-017-1242-7

[…] pared and spectra must be acquired in a specific way, limiting the use of this software.Alternative tools include MetaboMiner (Xia et al. ), SpinAssign (Chikayama et al. ) and COLMAR (Zhang et al. ). MetaboMiner performs semi-automated metabolite quantification of 2D TOCSY (TOtal Correlated SpectroscopY) and HSQC (Heteronuclear Single Quantum Coherence) spectra. SpinAssign contains a database of > […]

call_split

Nitrite Derived from Endogenous Bacterial Nitric Oxide Synthase Activity Promotes Aerobic Respiration

2017
MBio
PMCID: 5539425
PMID: 28765220
DOI: 10.1128/mBio.00887-17
call_split See protocol

[…] rved 1H and 13C chemical shifts to the metabolite reference data from the Platform for RIKEN Metabolomics (PRIMe) (), Human Metabolome Database (HMDB) (), Madison metabolomics Consortium Database (), Metabominer (), and BiomagResBank (BMRB) () with error tolerances of 0.08 ppm and 0.25 ppm for 1H and 13C chemical shifts, respectively. The relative intensity (i.e., concentration) of each metabolite […]

call_split

Amino Acid Catabolism in Staphylococcus aureus and the Function of Carbon Catabolite Repression

2017
MBio
PMCID: 5312079
PMID: 28196956
DOI: 10.1128/mBio.01434-16
call_split See protocol

[…] rm for RIKEN metabolomics (PRIMe; http://prime.psc.riken.jp/) (), Human Metabolome Database (HMDB; http://www.hmdb.ca/) (), Madison metabolomics Consortium Database (http://mmcd.nmrfam.wisc.edu/) (), Metabominer (http://wishart.biology.ualberta.ca/metabominer/) (), and BiomagResBank (BMRB; http://www.bmrb.wisc.edu//) () with error tolerances of 0.08 ppm and 0.25 ppm for 1H and 13C chemical shifts, […]

call_split

Serum metabolomics analysis of patients with chikungunya and dengue mono/co infections reveals distinct metabolite signatures in the three disease conditions

2016
Sci Rep
PMCID: 5109290
PMID: 27845374
DOI: 10.1038/srep36833
call_split See protocol

[…] nalysis like Principal Component Analysis (PCA), Partial Least Squares Discriminant Analysis (PLS-DA) were performed. The NMR peaks found to be significantly modulated were annotated using COLMAR and MetaboMiner web servers. These servers perform the search for the peaks in Metabolome Data Bank (www.hmdb.ca) and annotate the peaks by identifying the corresponding metabolites. The significant pathw […]

library_books

NMR based serum metabolomics reveals a distinctive signature in patients with Lupus Nephritis

2016
Sci Rep
PMCID: 5064370
PMID: 27739464
DOI: 10.1038/srep35309

[…] ing them with the chemical shifts available in the database library of Chenomx Profiler (NMR Suite, v8.1, Chenomx Inc., Edmonton, Canada) and further validated (a) using the freely available software MetaboMiner, (b) performing spiking experiments using standard chemicals (see , and ) and (c) also using other existing databases and literature reports. […]

library_books

Unified and Isomer Specific NMR Metabolomics Database for the Accurate Analysis of 13C–1H HSQC Spectra

2014
ACS Chem Biol
PMCID: 4340359
PMID: 25333826
DOI: 10.1021/cb5006382

[…] m, are the BMRB (Biological Magnetic Resonance Data Bank), HMDB (Human Metabolome Database), MMCD (Madison Metabolomics Consortium Database), PRIMe (Platform for RIKEN Metabolomics) database, and the Metabominer database. All of these databases were compiled by recording the 2D 13C–1H HSQC spectra of solutions of isolated (pure) compounds and they all perform cross-peak by cross-peak matching of t […]


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MetaboMiner institution(s)
Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada

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