Literature DB >> 20372976

Iterative algorithm of discrete Fourier transform for processing randomly sampled NMR data sets.

Jan Stanek1, Wiktor Koźmiński.   

Abstract

Spectra obtained by application of multidimensional Fourier Transformation (MFT) to sparsely sampled nD NMR signals are usually corrupted due to missing data. In the present paper this phenomenon is investigated on simulations and experiments. An effective iterative algorithm for artifact suppression for sparse on-grid NMR data sets is discussed in detail. It includes automated peak recognition based on statistical methods. The results enable one to study NMR spectra of high dynamic range of peak intensities preserving benefits of random sampling, namely the superior resolution in indirectly measured dimensions. Experimental examples include 3D (15)N- and (13)C-edited NOESY-HSQC spectra of human ubiquitin.

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Year:  2010        PMID： 20372976     DOI： 10.1007/s10858-010-9411-2

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN： 0925-2738            Impact factor:   2.835


  33 in total

1.  Novel 2D triple-resonance NMR experiments for sequential resonance assignments of proteins.

Authors:  Keyang Ding; Angela M Gronenborn
Journal:  J Magn Reson       Date:  2002-06       Impact factor: 2.229

2.  Accelerated acquisition of high resolution triple-resonance spectra using non-uniform sampling and maximum entropy reconstruction.

Authors:  David Rovnyak; Dominique P Frueh; Mallika Sastry; Zhen-Yu J Sun; Alan S Stern; Jeffrey C Hoch; Gerhard Wagner
Journal:  J Magn Reson       Date:  2004-09       Impact factor: 2.229

3.  Fast multidimensional NMR: radial sampling of evolution space.

Authors:  Eriks Kupce; Ray Freeman
Journal:  J Magn Reson       Date:  2005-04       Impact factor: 2.229

4.  High-resolution iterative frequency identification for NMR as a general strategy for multidimensional data collection.

Authors:  Hamid R Eghbalnia; Arash Bahrami; Marco Tonelli; Klaas Hallenga; John L Markley
Journal:  J Am Chem Soc       Date:  2005-09-14       Impact factor: 15.419

5.  Signal identification in NMR spectra with coupled evolution periods.

Authors:  Daniel Malmodin; Martin Billeter
Journal:  J Magn Reson       Date:  2005-09       Impact factor: 2.229

6.  Automated projection spectroscopy (APSY).

Authors:  Sebastian Hiller; Francesco Fiorito; Kurt Wüthrich; Gerhard Wider
Journal:  Proc Natl Acad Sci U S A       Date:  2005-07-25       Impact factor: 11.205

7.  Spectral reconstruction methods in fast NMR: reduced dimensionality, random sampling and maximum entropy.

Authors:  Mehdi Mobli; Alan S Stern; Jeffrey C Hoch
Journal:  J Magn Reson       Date:  2006-07-11       Impact factor: 2.229

8.  Optimization of resolution and sensitivity of 4D NOESY using multi-dimensional decomposition.

Authors:  T Luan; V Jaravine; A Yee; C H Arrowsmith; V Yu Orekhov
Journal:  J Biomol NMR       Date:  2005-09       Impact factor: 2.835

9.  High resolution 4-D spectroscopy with sparse concentric shell sampling and FFT-CLEAN.

Authors:  Brian E Coggins; Pei Zhou
Journal:  J Biomol NMR       Date:  2008-10-14       Impact factor: 2.835

10.  FM reconstruction of non-uniformly sampled protein NMR data at higher dimensions and optimization by distillation.

Authors:  Sven G Hyberts; Dominique P Frueh; Haribabu Arthanari; Gerhard Wagner
Journal:  J Biomol NMR       Date:  2009-08-25       Impact factor: 2.835
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  31 in total

1.  4D non-uniformly sampled HCBCACON and ¹J(NCα)-selective HCBCANCO experiments for the sequential assignment and chemical shift analysis of intrinsically disordered proteins.

Authors:  Jiří Nováček; Noam Y Haba; Jordan H Chill; Lukáš Zídek; Vladimír Sklenář
Journal:  J Biomol NMR       Date:  2012-05-13       Impact factor: 2.835

2.  Efficient protocol for backbone and side-chain assignments of large, intrinsically disordered proteins: transient secondary structure analysis of 49.2 kDa microtubule associated protein 2c.

Authors:  Jiří Nováček; Lubomír Janda; Radka Dopitová; Lukáš Žídek; Vladimír Sklenář
Journal:  J Biomol NMR       Date:  2013-07-23       Impact factor: 2.835

Review 3.  Probing conformational dynamics in biomolecules via chemical exchange saturation transfer: a primer.

Authors:  Pramodh Vallurupalli; Ashok Sekhar; Tairan Yuwen; Lewis E Kay
Journal:  J Biomol NMR       Date:  2017-03-19       Impact factor: 2.835

4.  Reaching the sparse-sampling limit for reconstructing a single peak in a 2D NMR spectrum using iterated maps.

Authors:  Robert L Blum; Jared Rovny; J Patrick Loria; Sean E Barrett
Journal:  J Biomol NMR       Date:  2019-07-10       Impact factor: 2.835

5.  Triple resonance ¹⁵Ν NMR relaxation experiments for studies of intrinsically disordered proteins.

Authors:  Pavel Srb; Jiří Nováček; Pavel Kadeřávek; Alžbeta Rabatinová; Libor Krásný; Jitka Žídková; Janette Bobálová; Vladimír Sklenář; Lukáš Žídek
Journal:  J Biomol NMR       Date:  2017-10-25       Impact factor: 2.835

6.  Accelerating 2D NMR relaxation dispersion experiments using iterated maps.

Authors:  Jared Rovny; Robert L Blum; J Patrick Loria; Sean E Barrett
Journal:  J Biomol NMR       Date:  2019-07-06       Impact factor: 2.835

7.  Exploring signal-to-noise ratio and sensitivity in non-uniformly sampled multi-dimensional NMR spectra.

Authors:  Sven G Hyberts; Scott A Robson; Gerhard Wagner
Journal:  J Biomol NMR       Date:  2012-12-29       Impact factor: 2.835

8.  Pitfalls in compressed sensing reconstruction and how to avoid them.

Authors:  Alexandra Shchukina; Paweł Kasprzak; Rupashree Dass; Michał Nowakowski; Krzysztof Kazimierczuk
Journal:  J Biomol NMR       Date:  2016-11-11       Impact factor: 2.835

9.  Application of iterative soft thresholding for fast reconstruction of NMR data non-uniformly sampled with multidimensional Poisson Gap scheduling.

Authors:  Sven G Hyberts; Alexander G Milbradt; Andreas B Wagner; Haribabu Arthanari; Gerhard Wagner
Journal:  J Biomol NMR       Date:  2012-02-14       Impact factor: 2.835

10.  PACSY, a relational database management system for protein structure and chemical shift analysis.

Authors:  Woonghee Lee; Wookyung Yu; Suhkmann Kim; Iksoo Chang; Weontae Lee; John L Markley
Journal:  J Biomol NMR       Date:  2012-08-19       Impact factor: 2.835
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