Literature DB >> 28257206

A New Wavelet Denoising Method for Experimental Time-Domain Signals: Pulsed Dipolar Electron Spin Resonance.

Madhur Srivastava1, Elka R Georgieva1, Jack H Freed1.   

Abstract

We adapt a new wavelet-transform-based method of denoising experimental signals to pulse-dipolar electron-spin resonance spectroscopy (PDS). We show that signal averaging times of the time-domain signals can be reduced by as much as 2 orders of magnitude, while retaining the fidelity of the underlying signals, in comparison with noiseless reference signals. We have achieved excellent signal recovery when the initial noisy signal has an SNR ≳ 3. This approach is robust and is expected to be applicable to other time-domain spectroscopies. In PDS, these time-domain signals representing the dipolar interaction between two electron spin labels are converted into their distance distribution functions P(r), usually by regularization methods such as Tikhonov regularization. The significant improvements achieved by using denoised signals for this regularization are described. We show that they yield P(r)'s with more accurate detail and yield clearer separations of respective distances, which is especially important when the P(r)'s are complex. Also, longer distance P(r)'s, requiring longer dipolar evolution times, become accessible after denoising. In comparison to standard wavelet denoising approaches, it is clearly shown that the new method (WavPDS) is superior.

Entities:  

Year:  2017        PMID: 28257206      PMCID: PMC5553325          DOI: 10.1021/acs.jpca.7b00183

Source DB:  PubMed          Journal:  J Phys Chem A        ISSN: 1089-5639            Impact factor:   2.781


  38 in total

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Journal:  J Magn Reson       Date:  2016-06-02       Impact factor: 2.229

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Authors:  Madhur Srivastava; C Lindsay Anderson; Jack H Freed
Journal:  IEEE Access       Date:  2016-07-07       Impact factor: 3.367

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Review 9.  Long-range distance determinations in biomacromolecules by EPR spectroscopy.

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  17 in total

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3.  Tm filtering by 1H-methyl labeling in a deuterated protein for pulsed double electron-electron resonance EPR.

Authors:  Thomas Schmidt; G Marius Clore
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4.  Singular Value Decomposition Method to Determine Distance Distributions in Pulsed Dipolar Electron Spin Resonance.

Authors:  Madhur Srivastava; Jack H Freed
Journal:  J Phys Chem Lett       Date:  2017-11-07       Impact factor: 6.475

5.  Singular Value Decomposition Method To Determine Distance Distributions in Pulsed Dipolar Electron Spin Resonance: II. Estimating Uncertainty.

Authors:  Madhur Srivastava; Jack H Freed
Journal:  J Phys Chem A       Date:  2018-12-24       Impact factor: 2.781

6.  Conformational Dynamics in Extended RGD-Containing Peptides.

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8.  Optimal Tikhonov regularization for DEER spectroscopy.

Authors:  Thomas H Edwards; Stefan Stoll
Journal:  J Magn Reson       Date:  2018-02-01       Impact factor: 2.229

9.  Site-Specific Incorporation of a Cu2+ Spin Label into Proteins for Measuring Distances by Pulsed Dipolar Electron Spin Resonance Spectroscopy.

Authors:  Gregory E Merz; Peter P Borbat; Alise R Muok; Madhur Srivastava; David N Bunck; Jack H Freed; Brian R Crane
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