scholarly journals Small-Angle Scattering and Multifractal Analysis of DNA Sequences

2020 ◽  
Vol 21 (13) ◽  
pp. 4651
Author(s):  
Eugen Mircea Anitas
Keyword(s):  
Dna Sequences ◽  
Small Angle ◽  
Multifractal Analysis ◽  
Small Angle Scattering ◽  
Spatial Inhomogeneity ◽  
Chaos Game Representation ◽  
Model Based ◽  
Angle Scattering ◽  
Box Counting Dimension ◽  
Multifractal Spectra

The arrangement of A, C, G and T nucleotides in large DNA sequences of many prokaryotic and eukaryotic cells exhibit long-range correlations with fractal properties. Chaos game representation (CGR) of such DNA sequences, followed by a multifractal analysis, is a useful way to analyze the corresponding scaling properties. This approach provides a powerful visualization method to characterize their spatial inhomogeneity, and allows discrimination between mono- and multifractal distributions. However, in some cases, two different arbitrary point distributions, may generate indistinguishable multifractal spectra. By using a new model based on multiplicative deterministic cascades, here it is shown that small-angle scattering (SAS) formalism can be used to address such issue, and to extract additional structural information. It is shown that the box-counting dimension given by multifractal spectra can be recovered from the scattering exponent of SAS intensity in the fractal region. This approach is illustrated for point distributions of CGR data corresponding to Escherichia coli, Phospholamban and Mouse mitochondrial DNA, and it is shown that for the latter two cases, SAS allows extraction of the fractal iteration number and the scaling factor corresponding to “ACGT” square, or to recover the number of bases. The results are compared with a model based on multiplicative deterministic cascades, and respectively with one which takes into account the existence of forbidden sequences in DNA. This allows a classification of the DNA sequences in terms of random and deterministic fractals structures emerging in CGR.

Small angle scattering study of silica gels and zeolites

1993 ◽  
Vol 03 (C8) ◽  
pp. C8-393-C8-396
Author(s):  
T. P.M. BEELEN ◽  
W. H. DOKTER ◽  
H. F. VAN GARDEREN ◽  
R. A. VAN SANTEN ◽  
E. PANTOS
Keyword(s):  
Small Angle ◽  
Small Angle Scattering ◽  
Silica Gels ◽  
Angle Scattering ◽  
Scattering Study

Study of hierarchical structure of fossil coals by small-angle scattering of thermal neutrons

Fuel ◽  
2021 ◽  
Vol 292 ◽  
pp. 120304
Author(s):  
T. Vasilenko ◽  
A. Kirillov ◽  
A. Islamov ◽  
A. Doroshkevich
Keyword(s):  
Hierarchical Structure ◽  
Small Angle ◽  
Small Angle Scattering ◽  
Thermal Neutrons ◽  
Angle Scattering ◽  
Fossil Coals

A novel model for the interpretation of small-angle scattering experiments of self-affine structures

2009 ◽  
Vol 43 (1) ◽  
pp. 12-16 ◽  
Author(s):  
Gerald J. Schneider ◽  
D. Göritz
Keyword(s):  
Small Angle ◽  
Analytical Description ◽  
Small Angle Scattering ◽  
Filled Rubber ◽  
Angle Scattering ◽  
Affine Structures ◽  
Novel Theory ◽  
First Time ◽  
Novel Model ◽  
Solid Spheres

A novel theory is presented which allows, for the first time, the analytical description of small-angle scattering experiments on anisotropic shaped clusters of nanoparticles. Experimentally, silica-filled rubber which is deformed is used as an example. The silica can be modelled by solid spheres which form clusters. The experiments demonstrate that the clusters become anisotropic as a result of the deformation whereas the spheres are not affected. A comparison of the newly derived model function and the experiments provides, for the first time, microscopic evidence of the inhomogeneous deformation of clusters in the rubbery matrix.

scholarly journals 2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update

2017 ◽  
Vol 73 (9) ◽  
pp. 710-728 ◽  
Author(s):  
Jill Trewhella ◽  
Anthony P. Duff ◽  
Dominique Durand ◽  
Frank Gabel ◽  
J. Mitchell Guss ◽  
...  
Keyword(s):  
Small Angle ◽  
Task Force ◽  
Data Bank ◽  
Small Angle Scattering ◽  
Scattering Data ◽  
Quality Data ◽  
Angle Scattering ◽  
Publication Guidelines ◽  
Guidelines And Recommendations

In 2012, preliminary guidelines were published addressing sample quality, data acquisition and reduction, presentation of scattering data and validation, and modelling for biomolecular small-angle scattering (SAS) experiments. Biomolecular SAS has since continued to grow and authors have increasingly adopted the preliminary guidelines. In parallel, integrative/hybrid determination of biomolecular structures is a rapidly growing field that is expanding the scope of structural biology. For SAS to contribute maximally to this field, it is essential to ensure open access to the information required for evaluation of the quality of SAS samples and data, as well as the validity of SAS-based structural models. To this end, the preliminary guidelines for data presentation in a publication are reviewed and updated, and the deposition of data and associated models in a public archive is recommended. These guidelines and recommendations have been prepared in consultation with the members of the International Union of Crystallography (IUCr) Small-Angle Scattering and Journals Commissions, the Worldwide Protein Data Bank (wwPDB) Small-Angle Scattering Validation Task Force and additional experts in the field.

Sign in / Sign up

Export Citation Format

Share Document