Hello all, I apologize for sending the mail again, but I am hoping to hear some expert advice on this issue.
The original post again: This is more of a conceptual question. If we are generating synthetic RDC's [from a ensemble of conformations], how do we add noise to the system? [noise - observation errors] For NOE's the acceptable way is 10-25% Guassian noise. For RDC's I can think of two ways: 1). Have a Guassian noise of of 0.26 HZ for NH and other bond vectors have different errors. This was mentioned in the paper, Amplitudes of Protein Backbone Dynamics and Correlated Motions in a Small R/β Protein: Correspondence of Dipolar Coupling and Heteronuclear Relaxation Measurements. by Dr. Clore and Dr. Schwieters. Since the RDC's have different magnitudes, depending upon the orientation, this model can potentially add huge noises to some RDC's while not affecting some others. 2). Use 10% Guassian noise of the magnitude of the RDC. I have not seen this method used in the papers I have read. What is the accepted method of adding noise to synthetic data Thanks Santhosh On Wed, Nov 27, 2013 at 2:45 PM, santhu kumar <mesan...@gmail.com> wrote: > Hello all, > > This is more of a conceptual question. > If we are generating synthetic RDC's [from a ensemble of conformations], > how do we add noise to the system? [noise - observation errors] > > For NOE's the acceptable way is 10-25% Guassian noise. > > For RDC's I can think of two ways: > 1). Have a Guassian noise of of 0.26 HZ for NH and other bond vectors have > different errors. > > This was mentioned in the paper, Amplitudes of Protein Backbone Dynamics > and Correlated Motions in a Small R/β Protein: Correspondence of Dipolar > Coupling and Heteronuclear Relaxation Measurements. by Dr. Clore and Dr. > Schwieters. > > Since the RDC's have different magnitudes, depending upon the orientation, > this model can potentially add huge noises to some RDC's while not > affecting some others. > > 2). Use 10% Guassian noise of the magnitude of the RDC. > I have not seen this method used in the papers I have read. > > What is the accepted method of adding noise to synthetic data? > Thanks > Santhosh >
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