Uniqueness of ab initio shape determination in small-angle scattering

By V. Volkov, Dmitri I. Svergun. 2003

1,994 citations recorded by the source corpus.

Subfields: Aerospace Engineering, Geophysics, Ocean Engineering

View Paper: https://www.semanticscholar.org/paper/f104a7bf5a1493939b2bb497843ed439019ceb8e

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Citations in the corpus

Cyclic GMP-AMP Synthase is Activated by Double-stranded DNA-Induced Oligomerization (2013, methodology): “Twenty runs were performed for each calculation and the DAMMIN results were further averaged using program DAMAVER (Volkov and Svergun, 2003).”
New developments in the ATSAS program package for small-angle scattering data analysis (2012, positive): “This feature enables one to keep the original symmetry in the averaged models generated by DAMAVER and DAMCLUST.”
ATSAS 2.8: a comprehensive data analysis suite for small-angle scattering from macromolecular solutions (2017, methodology): “DAMAVER (averaging models).”
ATSAS 2.1, a program package for small‐angle scattering data analysis (2006, neutral): “The program suite DAMAVER (Volkov & Svergun, 2003) estimates the stability of the solution provided by ab initio modelling programs.”
Refined solution structure of the 82-kDa enzyme malate synthase G from joint NMR and synchrotron SAXS restraints (2008, methodology): “The individual reconstructions were averaged using DAMAVER (Volkov and Svergun 2003) and superimposed on the X-ray model 1D8C with SUPCOMB (Kozin and Svergun 2001).”
Versatile sample environments and automation for biological solution X-ray scattering experiments at the P12 beamline (PETRA III, DESY) (2015, methodology): “A low-resolution ab initio bead model automatically generated by the pipeline using DAMMIF models for initial search and DAMMIN for refinement (Svergun, 1999; Kozin & Svergun, 2001; Volkov & Svergun, 2003; Franke & Svergun, 2009) aligns well with the previously solved crystal structure (Fig.”
BioXTAS RAW: improvements to a free open-source program for small-angle X-ray scattering data reduction and analysis (2017, methodology): “3), which provides a GUI interface for the DAMMIF, DAMAVER and DAMCLUST programs of the ATSAS package (Volkov & Svergun, 2003; Franke & Svergun, 2009; Petoukhov et al., 2012; Franke et al., 2017).”
DAMMIF, a program for rapid ab-initio shape determination in small-angle scattering (2009, positive): “It is further extremely important to analyse the uniqueness of the reconstruction, similar to DAMMIN, by comparing and averaging multiple individual runs, e.g. using the program DAMAVER (Volkov & Svergun, 2003).”
How Random are Intrinsically Disordered Proteins? A Small Angle Scattering Perspective (2012, background): “Significant outliers are discarded by the program, and the reconstruction with the lowest NSD is selected [66].”