Literature DB >> 22911501

A general Bayesian method for an automated signal class recognition in 2D NMR spectra combined with a multivariate discriminant analysis.

C Antz1, K P Neidig, H R Kalbitzer.   

Abstract

A generally applicable method for the automated classification of 2D NMR peaks has been developed, based on a Bayesian approach coupled to a multivariate linear discriminant analysis of the data. The method can separate true NMR signals from noise signals, solvent stripes and artefact signals. The analysis relies on the assumption that the different signal classes have different distributions of specific properties such as line shapes, line widths and intensities. As to be expected, the correlation network of the distributions of the selected properties affects the choice of the discriminant function and the final selection of signal properties. The classification rule for the signal classes was deduced from Bayes's theorem. The method was successfully tested on a NOESY spectrum of HPr protein from Staphylococcus aureus. The calculated probabilities for the different signal class memberships are realistic and reliable, with a high efficiency of discrimination between peaks that are true NOE signals and those that are not.

Entities:  

Year:  1995        PMID: 22911501     DOI: 10.1007/BF00211755

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


  7 in total

Review 1.  NMR studies of molecular complexes as a tool in drug design.

Authors:  S W Fesik
Journal:  J Med Chem       Date:  1991-10       Impact factor: 7.446

2.  Bayesian signal extraction from noisy FT NMR spectra.

Authors:  A Rouh; A Louis-Joseph; J Y Lallemand
Journal:  J Biomol NMR       Date:  1994-07       Impact factor: 2.835

Review 3.  Proton-detected heteronuclear edited and correlated nuclear magnetic resonance and nuclear Overhauser effect in solution.

Authors:  R H Griffey; A G Redfield
Journal:  Q Rev Biophys       Date:  1987-02       Impact factor: 5.318

4.  Computer aided evaluation of two-dimensional NMR spectra of proteins.

Authors:  K P Neidig; H Bodenmueller; H R Kalbitzer
Journal:  Biochem Biophys Res Commun       Date:  1984-12-28       Impact factor: 3.575

5.  Application of phase sensitive two-dimensional correlated spectroscopy (COSY) for measurements of 1H-1H spin-spin coupling constants in proteins.

Authors:  D Marion; K Wüthrich
Journal:  Biochem Biophys Res Commun       Date:  1983-06-29       Impact factor: 3.575

6.  The solution structure of the histidine-containing protein (HPr) from Staphylococcus aureus as determined by two-dimensional 1H-NMR spectroscopy.

Authors:  H R Kalbitzer; W Hengstenberg
Journal:  Eur J Biochem       Date:  1993-08-15

7.  HPr proteins of different microorganisms studied by hydrogen-1 high-resolution nuclear magnetic resonance: similarities of structures and mechanisms.

Authors:  H R Kalbitzer; W Hengstenberg; P Rösch; P Muss; P Bernsmann; R Engelmann; M Dörschug; J Deutscher
Journal:  Biochemistry       Date:  1982-06-08       Impact factor: 3.162

  7 in total
  16 in total

1.  Automated assignment of NOESY NMR spectra using a knowledge based method (KNOWNOE).

Authors:  Wolfram Gronwald; Sherif Moussa; Ralph Elsner; Astrid Jung; Bernhard Ganslmeier; Jochen Trenner; Werner Kremer; Klaus-Peter Neidig; Hans Robert Kalbitzer
Journal:  J Biomol NMR       Date:  2002-08       Impact factor: 2.835

2.  Protein NMR structure determination with automated NOE-identification in the NOESY spectra using the new software ATNOS.

Authors:  Torsten Herrmann; Peter Güntert; Kurt Wüthrich
Journal:  J Biomol NMR       Date:  2002-11       Impact factor: 2.835

3.  AUREMOL-RFAC-3D, combination of R-factors and their use for automated quality assessment of protein solution structures.

Authors:  Wolfram Gronwald; Konrad Brunner; Renate Kirchhöfer; Jochen Trenner; Klaus-Peter Neidig; Hans Robert Kalbitzer
Journal:  J Biomol NMR       Date:  2006-11-29       Impact factor: 2.835

4.  Chemical shift optimization in multidimensional NMR spectra by AUREMOL-SHIFTOPT.

Authors:  Kumaran Baskaran; Renate Kirchhöfer; Fritz Huber; Jochen Trenner; Konrad Brunner; Wolfram Gronwald; Klaus-Peter Neidig; Hans Robert Kalbitzer
Journal:  J Biomol NMR       Date:  2009-02-21       Impact factor: 2.835

Review 5.  Automated structure determination from NMR spectra.

Authors:  Peter Güntert
Journal:  Eur Biophys J       Date:  2008-09-20       Impact factor: 1.733

6.  Automation of peak-tracking analysis of stepwise perturbed NMR spectra.

Authors:  Tommaso Banelli; Marco Vuano; Federico Fogolari; Andrea Fusiello; Gennaro Esposito; Alessandra Corazza
Journal:  J Biomol NMR       Date:  2017-02-17       Impact factor: 2.835

7.  AURELIA, a program for computer-aided analysis of multidimensional NMR spectra.

Authors:  K P Neidig; M Geyer; A Görler; C Antz; R Saffrich; W Beneicke; H R Kalbitzer
Journal:  J Biomol NMR       Date:  1995-11       Impact factor: 2.835

8.  An automated framework for NMR resonance assignment through simultaneous slice picking and spin system forming.

Authors:  Ahmed Abbas; Xianrong Guo; Bing-Yi Jing; Xin Gao
Journal:  J Biomol NMR       Date:  2014-04-19       Impact factor: 2.835

9.  RFAC, a program for automated NMR R-factor estimation.

Authors:  W Gronwald; R Kirchhöfer; A Görler; W Kremer; B Ganslmeier; K P Neidig; H R Kalbitzer
Journal:  J Biomol NMR       Date:  2000-06       Impact factor: 2.835

10.  PICKY: a novel SVD-based NMR spectra peak picking method.

Authors:  Babak Alipanahi; Xin Gao; Emre Karakoc; Logan Donaldson; Ming Li
Journal:  Bioinformatics       Date:  2009-06-15       Impact factor: 6.937

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