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Number of citations per year for the bioinformatics software tool ProMetab
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Protocols

ProMetab specifications

Information


Unique identifier OMICS_03374
Name ProMetab
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

Publication for ProMetab

ProMetab citations

 (11)
library_books

Metabolomics Based Study of Logarithmic and Stationary Phases of Promastigotes in Leishmania major by 1H NMR Spectroscopy

2016
PMCID: 4726887
PMID: 26592771
DOI: 10.7508/ibj.2016.02.002

[…] Y (nuclear Overhauser spectroscopy) pulse sequence to suppress the residual water peak. Data analysis The resulting NMR spectra were imported into MATLAB (v.7.8.0.347) software and preprocessed with ProMetab software (version 1.1). Chemical shifts between 0 and 10 ppm were taken and normalized. Spectra were binned in 0.004 units, and water peak (4.7 ppm) was removed for data analysis[]. Principal […]

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Omega 3 and alpha tocopherol provide more protection against contaminants in novel feeds for Atlantic salmon (Salmo salar L.) than omega 6 and gamma tocopherol

2016
PMCID: 5615787
PMID: 28959541
DOI: 10.1016/j.toxrep.2016.01.008
call_split See protocol

[…] The processed NMR spectra were imported into Matlab (The Mathworks, Inc.) using ProMetab v3.3 software . The region from 10 to 0.5 ppm was imported with a resolution of 0.02 ppm which resulted in 4750 data points, and transformed using a generalized log transformation. PCA and PL […]

library_books

1H HR MAS NMR Spectroscopy and the Metabolite Determination of Typical Foods in Mediterranean Diet

2015
PMCID: 4606108
PMID: 26495154
DOI: 10.1155/2015/175696

[…] ised pattern recognition technique, allows the identification of differences and similarities between NMR metabolic fingerprints.In particular, NMR spectra were processed by means of a custom-written ProMetab 3.3 software [] in MATLAB version R2009b (The Math Works, Natick, MA, USA); spectra were binned from 0.7 to 10.0 ppm with 0.005 ppm bin size; the residual water signal (4.65–4.95 ppm) was exc […]

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Use of Nuclear Magnetic Resonance Based Metabolomics to Characterize the Biochemical Effects of Naphthalene on Various Organs of Tolerant Mice

2015
PLoS One
PMCID: 4388704
PMID: 25849086
DOI: 10.1371/journal.pone.0120429
call_split See protocol

[…] ivariable analysis, collected p-J-resolved NMR spectra were segmented into chemical shift bins between 0.2 and 10.0 ppm corresponding to the bin width of 0.005 ppm (3.0 Hz) using customized-developed ProMetab software (version 3.3) [, ] in MATLAB (The Mathworks, Natick, MA). After removal of internal standards (TMSP and TMS) and water resonance, the peak areas within each bin were integrated and n […]

library_books

Behavior of the Edible Seaweed Sargassum fusiforme to Copper Pollution: Short Term Acclimation and Long Term Adaptation

2014
PLoS One
PMCID: 4098904
PMID: 25025229
DOI: 10.1371/journal.pone.0101960

[…] spectral width 6,009.6 Hz, mixing time 0.1 s, and relaxation delay 0.3 s as described previously .All the NMR spectra were converted to a format for pattern recognition analysis using custom-written ProMetab software based on the Matlab software package (version 7.0; The MathWorks, Natick, MA, USA) . NMR spectral peaks were identified following tabulated chemical shifts and using the software, C […]

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The Impact of Inflammation on Metabolomic Profiles in Patients With Arthritis

2013
PMCID: 3840700
PMID: 23740368
DOI: 10.1002/art.38021
call_split See protocol

[…] ritis in group 1 and group 2 were acquired several years apart and so were analyzed separately. Samples were processed and data were calibrated with respect to the TMSP signal. Spectra were read into ProMetab (), custom written software in MatLab version 7 (The MathWorks), and were truncated to the chemical shift range of 0.8–10.0 parts per million. Spectra were segmented into 0.005-ppm (2.5 Hz) c […]


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ProMetab institution(s)
Centre for Systems Biology, The University of Birmingham, Edgbaston, Birmingham, UK

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