Literature DB >> 27795877

A New Wavelet Denoising Method for Selecting Decomposition Levels and Noise Thresholds.

Madhur Srivastava1, C Lindsay Anderson2, Jack H Freed3.   

Abstract

A new method is presented to denoise 1-D experimental signals using wavelet transforms. Although the state-of- the-art wavelet denoising methods perform better than other denoising methods, they are not very effective for experimental signals. Unlike images and other signals, experimental signals in chemical and biophysical applications for example, are less tolerant to signal distortion and under-denoising caused by the standard wavelet denoising methods. The new method 1) provides a method to select the number of decomposition levels to denoise, 2) uses a new formula to calculate noise thresholds that does not require noise estimation, 3) uses separate noise thresholds for positive and negative wavelet coefficients, 4) applies denoising to the Approximation component, and 5) allows the flexibility to adjust the noise thresholds. The new method is applied to continuous wave electron spin resonance (cw-ESR) spectra and it is found that it increases the signal-to-noise ratio (SNR) by more than 32 dB without distorting the signal, whereas standard denoising methods improve the SNR by less than 10 dB and with some distortion. Also, its computation time is more than 6 times faster.

Entities:  

Keywords:  Magnetic Resonance Spectroscopy; Noise Reduction; Noise Thresholding; Wavelet Denoising; Wavelet Transform

Year:  2016        PMID: 27795877      PMCID: PMC5079185          DOI: 10.1109/ACCESS.2016.2587581

Source DB:  PubMed          Journal:  IEEE Access        ISSN: 2169-3536            Impact factor:   3.367


  9 in total

Review 1.  New technologies in electron spin resonance.

Authors:  J H Freed
Journal:  Annu Rev Phys Chem       Date:  2000       Impact factor: 12.703

2.  Image quality assessment: from error visibility to structural similarity.

Authors:  Zhou Wang; Alan Conrad Bovik; Hamid Rahim Sheikh; Eero P Simoncelli
Journal:  IEEE Trans Image Process       Date:  2004-04       Impact factor: 10.856

3.  Denoising functional MR images: a comparison of wavelet denoising and Gaussian smoothing.

Authors:  Alle Meije Wink; Jos B T M Roerdink
Journal:  IEEE Trans Med Imaging       Date:  2004-03       Impact factor: 10.048

4.  High-frequency ESR at ACERT.

Authors:  Keith A Earle; Boris Dzikovski; Wulf Hofbauer; Jozef K Moscicki; Jack H Freed
Journal:  Magn Reson Chem       Date:  2005-11       Impact factor: 2.447

5.  Estimating the probability of the presence of a signal of interest in multiresolution single- and multiband image denoising.

Authors:  Aleksandra Pizurica; Wilfried Philips
Journal:  IEEE Trans Image Process       Date:  2006-03       Impact factor: 10.856

6.  WaveShrink Using Modified Hyper-Shrinkage Function.

Authors:  S Poornachandra; N Kumaravel; T Saravanan; R Somaskandan
Journal:  Conf Proc IEEE Eng Med Biol Soc       Date:  2005

7.  Spatially adaptive wavelet thresholding with context modeling for image denoising.

Authors:  S G Chang; B Yu; M Vetterli
Journal:  IEEE Trans Image Process       Date:  2000       Impact factor: 10.856

8.  An iterative algorithm for background removal in spectroscopy by wavelet transforms.

Authors:  C M Galloway; E C Le Ru; P G Etchegoin
Journal:  Appl Spectrosc       Date:  2009-12       Impact factor: 2.388

9.  Multifrequency electron spin resonance study of the dynamics of spin labeled T4 lysozyme.

Authors:  Ziwei Zhang; Mark R Fleissner; Dmitriy S Tipikin; Zhichun Liang; Jozef K Moscicki; Keith A Earle; Wayne L Hubbell; Jack H Freed
Journal:  J Phys Chem B       Date:  2010-04-29       Impact factor: 2.991

  9 in total
  17 in total

1.  A Global Minimization Toolkit for Batch-Fitting and χ2 Cluster Analysis of CW-EPR Spectra.

Authors:  William R Lindemann; Ty Christoff-Tempesta; Julia H Ortony
Journal:  Biophys J       Date:  2020-10-14       Impact factor: 4.033

2.  A radical containing injectable in-situ-oleogel and emulgel for prolonged in-vivo oxygen measurements with CW EPR.

Authors:  Lisa Lampp; Olga Yu Rogozhnikova; Dmitry V Trukhin; Victor M Tormyshev; Michael K Bowman; Nllathamby Devasahayam; Murali C Krishna; Karsten Mäder; Peter Imming
Journal:  Free Radic Biol Med       Date:  2018-10-27       Impact factor: 7.376

3.  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

4.  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

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

Authors:  Madhur Srivastava; Elka R Georgieva; Jack H Freed
Journal:  J Phys Chem A       Date:  2017-03-17       Impact factor: 2.781

6.  Bacterial Energy Sensor Aer Modulates the Activity of the Chemotaxis Kinase CheA Based on the Redox State of the Flavin Cofactor.

Authors:  Dipanjan Samanta; Joanne Widom; Peter P Borbat; Jack H Freed; Brian R Crane
Journal:  J Biol Chem       Date:  2016-11-01       Impact factor: 5.157

7.  Wavelet Denoising of High-Bandwidth Nanopore and Ion-Channel Signals.

Authors:  Siddharth Shekar; Chen-Chi Chien; Andreas Hartel; Peijie Ong; Oliver B Clarke; Andrew Marks; Marija Drndic; Kenneth L Shepard
Journal:  Nano Lett       Date:  2019-01-07       Impact factor: 11.189

8.  Calcium Ions Directly Interact with the Ebola Virus Fusion Peptide To Promote Structure-Function Changes That Enhance Infection.

Authors:  Lakshmi Nathan; Alex L Lai; Jean Kaoru Millet; Marco R Straus; Jack H Freed; Gary R Whittaker; Susan Daniel
Journal:  ACS Infect Dis       Date:  2019-12-10       Impact factor: 5.084

9.  Nucleotide Spin Labeling for ESR Spectroscopy of ATP-Binding Proteins.

Authors:  Alise R Muok; Teck Khiang Chua; Henry Le; Brian R Crane
Journal:  Appl Magn Reson       Date:  2018-11-14       Impact factor: 0.831

10.  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
Journal:  J Phys Chem B       Date:  2018-10-03       Impact factor: 2.991

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