Literature DB >> 16604426

PR-CALC: a program for the reconstruction of NMR spectra from projections.

Brian E Coggins1, Pei Zhou.   

Abstract

Projection-reconstruction NMR (PR-NMR) has attracted growing attention as a method for collecting multidimensional NMR data rapidly. The PR-NMR procedure involves measuring lower-dimensional projections of a higher-dimensional spectrum, which are then used for the mathematical reconstruction of the full spectrum. We describe here the program PR-CALC, for the reconstruction of NMR spectra from projection data. This program implements a number of reconstruction algorithms, highly optimized to achieve maximal performance, and manages the reconstruction process automatically, producing either full spectra or subsets, such as regions or slices, as requested. The ability to obtain subsets allows large spectra to be analyzed by reconstructing and examining only those subsets containing peaks, offering considerable savings in processing time and storage space. PR-CALC is straightforward to use, and integrates directly into the conventional pipeline for data processing and analysis. It was written in standard C+ + and should run on any platform. The organization is flexible, and permits easy extension of capabilities, as well as reuse in new software. PR-CALC should facilitate the widespread utilization of PR-NMR in biomedical research.

Entities:  

Mesh:

Substances:

Year:  2006        PMID: 16604426      PMCID: PMC3635542          DOI: 10.1007/s10858-006-0020-z

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


  29 in total

Review 1.  Maximum entropy reconstruction, spectrum analysis and deconvolution in multidimensional nuclear magnetic resonance.

Authors:  J C Hoch; A S Stern
Journal:  Methods Enzymol       Date:  2001       Impact factor: 1.600

2.  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

3.  Generalized reconstruction of n-D NMR spectra from multiple projections: application to the 5-D HACACONH spectrum of protein G B1 domain.

Authors:  Brian E Coggins; Ronald A Venters; Pei Zhou
Journal:  J Am Chem Soc       Date:  2004-02-04       Impact factor: 15.419

4.  Fast reconstruction of four-dimensional NMR spectra from plane projections.

Authors:  Eriks Kupce; Ray Freeman
Journal:  J Biomol NMR       Date:  2004-04       Impact factor: 2.835

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

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

6.  (4,2)D Projection--reconstruction experiments for protein backbone assignment: application to human carbonic anhydrase II and calbindin D(28K).

Authors:  Ronald A Venters; Brian E Coggins; Doug Kojetin; John Cavanagh; Pei Zhou
Journal:  J Am Chem Soc       Date:  2005-06-22       Impact factor: 15.419

7.  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

8.  The program XEASY for computer-supported NMR spectral analysis of biological macromolecules.

Authors:  C Bartels; T H Xia; M Billeter; P Güntert; K Wüthrich
Journal:  J Biomol NMR       Date:  1995-07       Impact factor: 2.835

9.  Resonance assignment of proteins with high shift degeneracy based on 5D spectral information encoded in G2FT NMR experiments.

Authors:  Hanudatta S Atreya; Alexander Eletsky; Thomas Szyperski
Journal:  J Am Chem Soc       Date:  2005-04-06       Impact factor: 15.419

10.  NMRPipe: a multidimensional spectral processing system based on UNIX pipes.

Authors:  F Delaglio; S Grzesiek; G W Vuister; G Zhu; J Pfeifer; A Bax
Journal:  J Biomol NMR       Date:  1995-11       Impact factor: 2.835

View more
  9 in total

Review 1.  Radial sampling for fast NMR: Concepts and practices over three decades.

Authors:  Brian E Coggins; Ronald A Venters; Pei Zhou
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2010-07-30       Impact factor: 9.795

2.  Sampling of the NMR time domain along concentric rings.

Authors:  Brian E Coggins; Pei Zhou
Journal:  J Magn Reson       Date:  2006-10-27       Impact factor: 2.229

3.  Analytical solution to the coupled evolution of multidimensional NMR data.

Authors:  Geoffrey A Mueller
Journal:  J Biomol NMR       Date:  2009-03-24       Impact factor: 2.835

4.  On projection-reconstruction NMR.

Authors:  Clark D Ridge; Vladimir A Mandelshtam
Journal:  J Biomol NMR       Date:  2009-01-22       Impact factor: 2.835

5.  A HAUSDORFF-BASED NOE ASSIGNMENT ALGORITHM USING PROTEIN BACKBONE DETERMINED FROM RESIDUAL DIPOLAR COUPLINGS AND ROTAMER PATTERNS.

Authors:  Jianyang Michael Zeng; Chittaranjan Tripathy; Pei Zhou; Bruce R Donald
Journal:  Comput Syst Bioinformatics Conf       Date:  2008

6.  APSY-NMR with proteins: practical aspects and backbone assignment.

Authors:  Sebastian Hiller; Gerhard Wider; Kurt Wüthrich
Journal:  J Biomol NMR       Date:  2008-10-08       Impact factor: 2.835

7.  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

8.  A practical implementation of cross-spectrum in protein backbone resonance assignment.

Authors:  Kang Chen; Frank Delaglio; Nico Tjandra
Journal:  J Magn Reson       Date:  2009-12-24       Impact factor: 2.229

9.  Enhanced spectral resolution by high-dimensional NMR using the filter diagonalization method and "hidden" dimensions.

Authors:  Xi Meng; Bao D Nguyen; Clark Ridge; A J Shaka
Journal:  J Magn Reson       Date:  2008-09-30       Impact factor: 2.229

  9 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.