rNMR protocols

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rNMR specifications

Information


Unique identifier OMICS_02841
Name rNMR
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Ian A. Lewis <>

Publication for rNMR

rNMR in pipeline

2016
PMCID: 4876396
PMID: 27212081
DOI: 10.1038/srep26515

[…] and applying the following parameters: scaling = “pareto”, imput = “mean”, normalize = true. batch spectral integration of selected regions of interest (roi) was performed on 1h nmr spectra using rnmr. the next rois (expressed in ppm) were used: 2.570–2.547 (citrate), 2.680–2.635 (malate), 6.513–6.500 (fumarate), 2.398–2.389 (succinate), 3.771–3.741 (glutamate) and 3.020–2.987 (γ-aminobutyric […]


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rNMR in publications

 (10)
PMCID: 5823927
PMID: 29472553
DOI: 10.1038/s41598-018-20120-x

[…] project (rdp; http://rdp.cme.msu.edu/seqmatch/seqmatch intro.jsp) classifier. the microbial profile data is available in table ., all 1d 1h-nmr data were baseline collected and peak picked by rnmr on the platform of “r.” each spectrum was normalized by pqn, scaled, centered and then sorted out as basic data matrix. statistical multivariate analyzes, such as principal component analysis […]

PMCID: 5821832
PMID: 29467421
DOI: 10.1038/s41598-018-20121-w

[…] such databases and tools, for example, include the human metabolome database, biological magnetic resonance data bank, 1h (13c) toccata,, spinassign, spincouple, metaboanalyst, nmrshiftdb, mvapack, rnmr, batman, statistical total correlation spectroscopy, fragment-assembly approach, and signal enhancement by spectral integration (sensi) method., in the fields of nmr-based metabolomics, one key […]

PMCID: 5748757
PMID: 29194366
DOI: 10.3390/nu9121307

[…] in the following analysis. the sequences that passed the qiime of 16s rrna otu had a mean of 5619.26, and sd of 1653.89., peaks of one-dimensional skyline projection (1h-nmr) data were picked up by rnmr on the “r” platform [,]. the peak-picking data and other microbial and elemental data were normalized by unit variance. pca, random forest, and network analyses were performed using the packages […]

PMCID: 5751175
PMID: 29186063
DOI: 10.3390/ijms18122572

[…] 100 ms. the delay time in the hmbc experiment was 60 ms and the mixing time in the noesy experiment was 200 ms. regions of interest (roi) in the hr-mas hsqc-dept spectra were visualized using the rnmr program []., the relative content of the o-acetyl groups in the o-specific polysaccharides was determined by integration of the relevant signals from their 1d 1h nmr spectra acquired with a 30° […]

PMCID: 5423636
PMID: 28486539
DOI: 10.1371/journal.pone.0177233

[…] followed by the zeroth order phase correction of 90 degrees. the final spectrum contained 2048 and 256 real points in f2 and f1, respectively. the resulting spectra were visualized and analyzed by rnmr []. the peaklist generated by rnmr was sent to mmcd (http://mmcd.nmrfam.wisc.edu) [], prime (http://prime.psc.riken.jp) [, ], and ecmdb (http://www.ecmdb.ca) [, ] to retrieve a list of candidate […]


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rNMR institution(s)
National Magnetic Resonance Facility at Madison, Department of Biochemistry, University of Wisconsin, Madison, Madison, WI, USA

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