Imperial College London
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Dr Joram M. Posma PhD MSc B AS MRSC

Faculty of Medicine, Department of Metabolism, Digestion and Reproduction

Senior Lecturer in Biomedical Informatics
 
 
 
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Contact

 

j.posma11 Website

 
 
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Location

 

E305Burlington DanesHammersmith Campus

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Summary

 

Publications

Citation

BibTex format

@article{Rodriguez-Martinez:2019:bioinformatics/bty837,
author = {Rodriguez-Martinez, A and Ayala, R and Posma, JM and Harvey, N and Jiménez, B and Sonomura, K and Sato, T-A and Matsuda, F and Zalloua, P and Gauguier, D and Nicholson, JK and Dumas, M-E},
doi = {bioinformatics/bty837},
journal = {Bioinformatics},
pages = {1916--1922},
title = {pJRES Binning Algorithm (JBA): a new method to facilitate the recovery of metabolic information from pJRES 1H NMR spectra},
url = {http://dx.doi.org/10.1093/bioinformatics/bty837},
volume = {35},
year = {2019}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - Motivation: Data processing is a key bottleneck for 1H NMR-based metabolic profiling of complex biological mixtures, such as biofluids. These spectra typically contain several thousands of signals, corresponding to possibly few hundreds of metabolites. A number of binning-based methods have been proposed to reduce the dimensionality of 1D 1H NMR datasets, including statistical recoupling of variables (SRV). Here, we introduce a new binning method, named JBA ("pJRES Binning Algorithm"), which aims to extend the applicability of SRV to pJRES spectra. Results: The performance of JBA is comprehensively evaluated using 617 plasma 1H NMR spectra from the FGENTCARD cohort. The results presented here show that JBA exhibits higher sensitivity than SRV to detect peaks from low-abundance metabolites. In addition, JBA allows a more efficient removal of spectral variables corresponding to pure electronic noise, and this has a positive impact on multivariate model building. Availability: The algorithm is implemented using the MWASTools R/Bioconductor package. Supplementary information: Supplementary data are available at Bioinformatics online.
AU  - Rodriguez-Martinez,A
AU  - Ayala,R
AU  - Posma,JM
AU  - Harvey,N
AU  - Jiménez,B
AU  - Sonomura,K
AU  - Sato,T-A
AU  - Matsuda,F
AU  - Zalloua,P
AU  - Gauguier,D
AU  - Nicholson,JK
AU  - Dumas,M-E
DO  - bioinformatics/bty837
EP  - 1922
PY  - 2019///
SN  - 1367-4803
SP  - 1916
TI  - pJRES Binning Algorithm (JBA): a new method to facilitate the recovery of metabolic information from pJRES 1H NMR spectra
T2  - Bioinformatics
UR  - http://dx.doi.org/10.1093/bioinformatics/bty837
UR  - https://www.ncbi.nlm.nih.gov/pubmed/30351417
UR  - http://hdl.handle.net/10044/1/64970
VL  - 35
ER  -
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