The CCPN data model for NMR spectroscopy: Development of a software pipeline

By Wim F. Vranken, Wayne Boucher, T. Stevens, Rasmus H. Fogh, A. Pajon, M. Llinás, E. Ulrich, John L. Markley, John M. C. Ionides, E. Laue. Proteins: Structure, Function, and Bioinformatics, 2005

3,290 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/8c1f7a4726fede07873f698abd8c47d873b3c935

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Citations in the corpus

PDBe: Protein Data Bank in Europe (2010, methodology): “In collaboration with CCPN and SpronkNMR consultancy, PDBe has developed an on-line version of the FormatConverter software ( 19 ).”
MeMo: a hybrid SQL/XML approach to metabolomic data management for functional genomics (2006, neutral): “…support other emerging standards related to metabolomics, either partially (i.e. covering certain aspects of metabolomics, e.g. mzXML [54], which also relates to mass spectrometry or CCPN for NMR [55]) or fully (e.g. any format emerging from the SMRS group [20] and the Metabolomics Society [21]).”
The HADDOCK web server for data-driven biomolecular docking (2010, methodology): “• The generation of such parameter files has already been implemented into the CCPN Analysis NMR software suite 15 and the MTMDAT program for the analysis of mass spectrometry data resulting from partial digestion of complexes 16 .”
The Structure, Stability and Pheromone Binding of the Male Mouse Protein Sex Pheromone Darcin (2014, methodology): “Relaxation curves were determined using CCPN analysis software [33].”
NMRbox: A Resource for Biomolecular NMR Computation. (2017, background): “CCPN (5,6) is a long-running European collaborative project to link new and existing NMR software via a common data standard.”
CcpNmr AnalysisAssign: a flexible platform for integrated NMR analysis (2016, methodology): “CcpNmr Analysis was designed to accommodate any desired assignment strategy and to allow full access to all internal data using a public, and documented API; thus facilitating the writing of macros, or code, to extend the functionality of the program.”
Integrative NMR for biomolecular research (2016, positive): “The chemical-shift-based method utilizes CS-Rosetta calculations (Shen et al. 2008) carried out on a server at BMRB (https://csrosetta.bmrb. wisc.edu/csrosetta) that employs the Condor (Thain et al. 2003) grid computing system (Fig.”
Nmrglue: an open source Python package for the analysis of multidimensional NMR data (2013, methodology): “Although recent software packages such as the CCPN NMR FormatConverter (Vranken et al. 2005), the WeNMR portal (Wassenaar et al. 2012) and the CONNJUR Spectrum Translator (Nowling et al. 2011) provide capabilities for converting between a number of NMR formats they do not offer a complete solution…”