Literature DB >> 18419139

NMR-based characterization of metabolic alterations in hypertension using an adaptive, intelligent binning algorithm.

Tim De Meyer1, Davy Sinnaeve, Bjorn Van Gasse, Elena Tsiporkova, Ernst R Rietzschel, Marc L De Buyzere, Thierry C Gillebert, Sofie Bekaert, José C Martins, Wim Van Criekinge.   

Abstract

As with every -omics technology, metabolomics requires new methodologies for data processing. Due to the large spectral size, a standard approach in NMR-based metabolomics implies the division of spectra into equally sized bins, thereby simplifying subsequent data analysis. Yet, disadvantages are the loss of information and the occurrence of artifacts caused by peak shifts. Here, a new binning algorithm, Adaptive Intelligent Binning (AI-Binning), which largely circumvents these problems, is presented. AI-Binning recursively identifies bin edges in existing bins, requires only minimal user input, and avoids the use of arbitrary parameters or reference spectra. The performance of AI-Binning is demonstrated using serum spectra from 40 hypertensive and 40 matched normotensive subjects from the Asklepios study. Hypertension is a major cardiovascular risk factor characterized by a complex biochemistry and, in most cases, an unknown origin. The binning algorithm resulted in an improved classification of hypertensive status compared with that of standard binning and facilitated the identification of relevant metabolites. Moreover, since the occurrence of noise variables is largely avoided, AI-Binned spectra can be unit-variance scaled. This enables the detection of relevant, low-intensity metabolites. These results demonstrate the power of AI-Binning and suggest the involvement of alpha-1 acid glycoproteins and choline biochemistry in hypertension.

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Year:  2008        PMID: 18419139     DOI: 10.1021/ac7025964

Source DB:  PubMed          Journal:  Anal Chem        ISSN: 0003-2700            Impact factor:   6.986


  72 in total

1.  Simultaneous analysis of plasma and CSF by NMR and hierarchical models fusion.

Authors:  Agnieszka Smolinska; Joram M Posma; Lionel Blanchet; Kirsten A M Ampt; Amos Attali; Tinka Tuinstra; Theo Luider; Marek Doskocz; Paul J Michiels; Frederic C Girard; Lutgarde M C Buydens; Sybren S Wijmenga
Journal:  Anal Bioanal Chem       Date:  2012-03-07       Impact factor: 4.142

2.  Identification and quantification of metabolites in (1)H NMR spectra by Bayesian model selection.

Authors:  Cheng Zheng; Shucha Zhang; Susanne Ragg; Daniel Raftery; Olga Vitek
Journal:  Bioinformatics       Date:  2011-03-12       Impact factor: 6.937

3.  NMR Metabolomics Protocols for Drug Discovery.

Authors:  Fatema Bhinderwala; Robert Powers
Journal:  Methods Mol Biol       Date:  2019

4.  Biosynthesis and prebiotic activity of a linear levan from a new Paenibacillus isolate.

Authors:  Rui Cheng; Long Cheng; Yang Zhao; Lei Wang; Shiming Wang; Jianfa Zhang
Journal:  Appl Microbiol Biotechnol       Date:  2021-01-06       Impact factor: 4.813

Review 5.  Analysis of bacterial biofilms using NMR-based metabolomics.

Authors:  Bo Zhang; Robert Powers
Journal:  Future Med Chem       Date:  2012-06       Impact factor: 3.808

6.  Multi-tissue metabolic responses of goldfish (Carassius auratus) exposed to glyphosate-based herbicide.

Authors:  Ming-Hui Li; Hua-Dong Xu; Yan Liu; Ting Chen; Lei Jiang; Yong-Hong Fu; Jun-Song Wang
Journal:  Toxicol Res (Camb)       Date:  2016-04-15       Impact factor: 3.524

7.  Evaluating line-broadening factors on a reference spectrum as a bucketing method for NMR based metabolomics.

Authors:  Bo Wang; Antoniette M Maldonado-Devincci; Lin Jiang
Journal:  Anal Biochem       Date:  2020-07-29       Impact factor: 3.365

8.  Interdependence of signal processing and analysis of urine 1H NMR spectra for metabolic profiling.

Authors:  Shucha Zhang; Cheng Zheng; Ian R Lanza; K Sreekumaran Nair; Daniel Raftery; Olga Vitek
Journal:  Anal Chem       Date:  2009-08-01       Impact factor: 6.986

9.  Redox Imbalance Underlies the Fitness Defect Associated with Inactivation of the Pta-AckA Pathway in Staphylococcus aureus.

Authors:  Darrell D Marshall; Marat R Sadykov; Vinai C Thomas; Kenneth W Bayles; Robert Powers
Journal:  J Proteome Res       Date:  2016-03-24       Impact factor: 4.466

Review 10.  From differentiating metabolites to biomarkers.

Authors:  Albert Koulman; Geoffrey A Lane; Scott J Harrison; Dietrich A Volmer
Journal:  Anal Bioanal Chem       Date:  2009-03-11       Impact factor: 4.142

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