Article
Biochemistry & Molecular Biology
Dmitry S. Molodenskiy, Dmitri Svergun, Alexey G. Kikhney
Summary: This article introduces a method based on artificial neural networks for analyzing small-angle X-ray scattering data, which can reliably predict the size and shape information of dissolved particles.
Article
Chemistry, Multidisciplinary
Flavio Carsughi
Summary: In this research, a simplified polydispersion analysis (SPA) method is proposed for analyzing small-angle scattering (SAS) data. By straightforward interpolation of SAS data, the size distribution function (SDF) of polydisperse inhomogeneities can be determined without advanced computational skills. The method is tested against simulated and experimental data with excellent results, offering new opportunities for scientists to investigate polydisperse systems using SAS technique.
APPLIED SCIENCES-BASEL
(2022)
Review
Chemistry, Analytical
Seema Thakral, Kyungtae Kim
Summary: Small-angle scattering (SAS) is a versatile analytical technique that provides detailed structural information at the nanometer scale. It has diverse applications in pharmaceutical material characterization, including identification of liquid-crystalline mesophase of drugs, study of excipient microstructure influence, and optimization of solid dispersions and protein-based therapeutics formulations.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2021)
Article
Physics, Multidisciplinary
Yui Hayashi, Shun Katakami, Shigeo Kuwamoto, Kenji Nagata, Masaichiro Mizumaki, Masato Okada
Summary: In this paper, a method based on Bayesian inference is proposed to estimate model parameters using small-angle scattering (SAS) data. The conventional analysis methods often involve heuristic approaches and lack reliability, while the proposed method provides accurate and reliable estimations, as well as insights on the transition point of estimability.
JOURNAL OF THE PHYSICAL SOCIETY OF JAPAN
(2023)
Article
Computer Science, Software Engineering
William T. Heller, Mathieu Doucet, Richard K. Archibald
Summary: The software sas-temper automates the process of repeated fits to a single data set and analysis of the results, simplifying the analysis of small-angle X-ray and neutron scattering data. The output of sas-temper enables users to easily determine if additional data fitting is necessary, while also simplifying the refinement of the parameter search space.
Article
Chemistry, Multidisciplinary
Karen Manalastas-Cantos, Petr Konarev, Nelly R. Hajizadeh, Alexey G. Kikhney, Maxim Petoukhov, Dmitry S. Molodenskiy, Alejandro Panjkovich, Haydyn D. T. Mertens, Andrey Gruzinov, Clemente Borges, Cy M. Jeffries, Dmitri Svergun, Daniel Franke
Summary: ATSAS 3.0 introduces new programs and technical updates for processing small-angle scattering data from biological macromolecules. It includes features like simulating scattering patterns, resampling methods, pair distance distribution calculation, and adding new analysis tools. The package also includes improvements for maintainability, compatibility, and is freely available for academic users.
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2021)
Article
Biochemical Research Methods
Jill Trewhella, Cy M. Jeffries, Andrew E. Whitten
Summary: Guidelines were published in 2017 for reporting small-angle scattering (SAS) data from biomolecules in solution, introducing best-practice documentation of experiments and analysis. The IUCr biology journals now require the deposition of SAS data into a public archive, along with adherence to the 2017 reporting guidelines. Updated reporting templates have been developed based on feedback from the SAS community, providing standard descriptions for proteins, glycosylated proteins, DNA and RNA, as well as specialized templates for SAS contrast-variation experiments.
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY
(2023)
Review
Biochemistry & Molecular Biology
William T. Heller
Summary: SANS is a powerful tool for studying biological and model lipid membranes, enabling details to be revealed. This article provides an overview of its application for studying lipid bilayer vesicles, the advantages of selective deuteration and contrast variation methods, and approaches to modeling SANS data.
Article
Biochemistry & Molecular Biology
Daria Wojciechowska, Michal Taube, Karolina Rucinska, Joanna Maksim, Maciej Kozak
Summary: This study characterized the oligomeric states of human cystatin C in different pH conditions, revealing the ability to form tetramers at low pH and dissociate into dimers at neutral pH.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Chemistry, Physical
Abigail Barclay, Birthe B. Kragelund, Lise Arleth, Martin Cramer Pedersen
Summary: Recent advances in protein expression protocols have allowed for the investigation of structurally complex and disordered biomolecules using small-angle scattering experiments. A modeling scheme has been developed that combines classical form factor based modeling with spherical harmonics-based formulation to accurately calculate scattering profiles from these complex samples. The scheme can account for flexible domains and other structurally elaborate components, and we demonstrate its utility through a case study on a growth hormone receptor membrane protein. We also explore how the scattering profiles vary under different contrasts and discuss the implications for data modeling.
JOURNAL OF COLLOID AND INTERFACE SCIENCE
(2023)
Article
Biochemistry & Molecular Biology
Brad T. Sherman, Ming Hao, Ju Qiu, Xiaoli Jiao, Michael W. Baseler, H. Clifford Lane, Tomozumi Imamichi, Weizhong Chang
Summary: DAVID, a popular bioinformatics resource system, has undergone updates in 2021, including the rebuilding of the DAVID Gene system, increasing the number of gene-term records for annotation types, adding new annotations, assigning specific subgroups, and adding a species parameter for improved user experience.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Chemistry, Multidisciplinary
Philipp Bender, Dirk Honecker, Mathias Bersweiler, Rocio Costo, Tamara Kahmann, Frank Ludwig, Jon Leiner, Johanna K. Jochum
Summary: The small-angle neutron scattering data of nanostructured magnetic samples can provide information about their chemical and magnetic properties. Different methods have been compared to derive regularized, more stable correlation functions from the data. It is shown that, in principle, the same correlation function can be obtained using the indirect Fourier transform, singular value decomposition, and an iterative algorithm. It is recommended to combine these three approaches to obtain robust results.
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2022)
Article
Medicine, Research & Experimental
Dileep Urimi, Maja Hellsing, Najet Mahmoudi, Christopher Soderberg, Ronja Widenbring, Lars Gedda, Katarina Edwards, Thorsteinn Loftsson, Nicolaas Schipper
Summary: Lipid nanocapsules (LNCs) with core-shell structure were studied using various techniques, and it was found that drug loading does not alter the overall structure of LNCs. However, the presence of the drug leads to an increase in the thickness of the shell while the core size remains unchanged.
MOLECULAR PHARMACEUTICS
(2022)
Article
Crystallography
Vladimir V. Volkov
Summary: The paper examines an algorithm for directly searching for a nonparametric smooth histogram of particle size distribution using small-angle X-ray and neutron scattering data. The study discusses the features and implementation details of the method, which involves sequentially searching for solutions with varying degrees of distribution contour smoothness. Methods for evaluating the stability of both the entire distribution contour and its individual parts are also explored. Examples of analyzing polydisperse spherical particles in silicasol solutions are provided to illustrate the program's functionality.
Article
Computer Science, Software Engineering
William T. Heller, John Hetrick, Jean Bilheux, Jose M. Borreguero Calvo, Wei-Ren Chen, Lisa DeBeer-Schmitt, Changwoo Do, Mathieu Doucet, Michael R. Fitzsimmons, William F. Godoy, Garrett E. Granroth, Steven Hahn, Lilin He, Fahima Islam, Jiao Lin, Kenneth C. Littrell, Marshall McDonnell, Jesse McGaha, Peter F. Peterson, Sai Venkatesh Pingali, Shuo Qian, Andrei T. Savici, Yingrui Shang, Christopher B. Stanley, Volker S. Urban, Ross E. Whitfield, Chen Zhang, Wenduo Zhou, Jay Jay Billings, Matthew J. Cuneo, Ricardo M. Ferraz Leal, Tianhao Wang, Bin Wu
Summary: This article describes the drtsans software package developed at Oak Ridge National Laboratory for data reduction in small-angle neutron scattering experiments. The software has positively impacted the scientific programs on the EQ-SANS, GP-SANS, and Bio-SANS instruments.
Article
Chemistry, Multidisciplinary
Steen Hansen
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2016)
Article
Biophysics
Steen Hansen
EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS
(2018)
Article
Chemistry, Multidisciplinary
Steen Hansen
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2008)
Article
Chemistry, Multidisciplinary
Steen Hansen
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2011)
Article
Chemistry, Multidisciplinary
Steen Hansen
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2012)
Software Review
Chemistry, Multidisciplinary
Steen Hansen
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2012)
Article
Chemistry, Multidisciplinary
Steen Hansen
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2013)
Article
Plant Sciences
Steen Laugesen Hansen, Peter Martin Ray, Anders Ola Karlsson, Bodil Jorgensen, Bernhard Borkhardt, Bent Larsen Petersen, Peter Ulvskov
Article
Chemistry, Multidisciplinary
Martin Cramer Pedersen, Steen Laugesen Hansen, Bo Markussen, Lise Arleth, Kell Mortensen
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2014)
Article
Chemistry, Multidisciplinary
Andreas Haahr Larsen, Lise Arleth, Steen Hansen
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2018)
Article
Mechanics
Steen Hansen
Article
Chemistry, Multidisciplinary
Benjamin Abecassis, Fabienne Testard, Lise Arleth, Steen Hansen, Isabelle Grillo, Thomas Zemb
Article
Chemistry, Multidisciplinary
Bente Vestergaard, Steen Hansen
JOURNAL OF APPLIED CRYSTALLOGRAPHY
(2006)
Article
Chemistry, Multidisciplinary
Benjamin Abecassis, Fabienne Testard, Lise Arleth, Steen Hansen, Isabelle Grillo, Thomas Zemb