- About SASBDB
- Publications reporting the use of SASBDB for methods development
Publications reporting the use of SASBDB for methods development
- Ramirez C, Di Mare E, Byrnes J, Ahmed E, Pineiro-Goncalves M, Lopez C, Snajeeva Murthy N, Gormley A.J.
SAXS Assistant: Automated SAXS analysis for structural discovery in biologics and polymeric nanoparticles.
Biophys J, 124(21):3772–3786, 4 November 2025
- Litje K, Pedersen JS
Small-angle X-ray scattering profile calculation for high-resolution models of biomacromolecules.
J Appl Crystallogr, 58(4):1332–1340, 16 July 2025
- Gomes T, Ruiz L, Martin-Malpartida P, Bernadó P, Baptista AM, Macias MJ, Cordeiro TN
KDSAXS: A Tool for Analyzing Binding Equilibria With SAXS Data Using Explicit Models
J Mol Biol, 437(15):169103, 25 Mar 2025
- Brotzakis ZF, Zhang S, Murtada MH, Vendruscolo M
AlphaFold prediction of structural ensembles of disordered proteins.
Nat Commun, 16:1632, 14 February 2025
- Badger J
Calculation of pair distribution functions from small-angle X-ray scattering protein data by direct transform.
J Appl Crystallogr, 58:119–127, 2025
- Thiel BC, Bussi G, Poblete S, Hofacker IL
Sampling globally and locally correct RNA 3D structures using Ernwin, SPQR and experimental SAXS data.
Nucleic Acids Res, 52(16), 09 Sep 2024
- Trewhella J, Vachette P, Larsen AH
Benchmarking predictive methods for SAXS from atomic coordinates using maximum likelihood consensus data.
IUCrJ, 11(5):762–779, 01 Sep 2024
- Lytje K, Pedersen JS
Validation of electron-microscopy maps using solution small-angle X-ray scattering.
Acta Crystallogr D, 80(7):493–505, 01 Jul 2024
- Wang H, Du R, Liu Z, Zhang J
Machine learning in neutron scattering data analysis.
J Radiat Res Appl Sci, 17(2):100870, June 2024
- Kharche S, Yadav M, Hande V, Prakash S, Sengupta D
Improved Protein Dynamics and Hydration in the Martini3 Coarse-Grain Model.
J Chem Inf Model, 64(3):837–850, 12 Feb 2024
- Hopkins JB
BioXTAS RAW 2: new developments for a free open-source program for small-angle scattering data reduction and analysis.
J Appl Crystallogr, 57(1):194–208, 01 Feb 2024
- Chakraborty D, Mondal B, Thirumalai D
Brewing COFFEE: A Sequence-Specific Coarse-Grained Energy Function for Simulations of DNA–Protein Complexes.
J Chem Theory Comput, 20(3):1398-1413, 19 January 2024
- Chamberlain SR, Moore S, Grant TD
Fitting high-resolution electron density maps from atomic models to solution scattering data.
Biophys J, 122(23):4567–4581, 05 Dec 2023
- Brookes E, Rocco M, Vachette P, Trewhella J
AlphaFold-predicted protein structures and small-angle X-ray scattering: insights from an extended examination of selected data in the Small-Angle Scattering Biological Data Bank.
J Appl Crystallogr, 56(4):910–926, 20 Jul 2023
- de Oliveira Neto M, de Freitas Fernandes A, Piiadov V, Craievich AF, de Araújo EA, Polikarpov I
SAXSMoW 3.0: Advances in molecular weight determination from SAXS data.
Protein Sci, 31:251–258, 2022
- Grant TD
Describing small-angle scattering profiles by a limited set of intensities.
J Appl Crystallogr, 55(5):1116–1124, October 2022
- Brookes E, Rocco M
A database of calculated solution parameters for the AlphaFold predicted protein structures.
Sci Rep, 12:7349, 05 May 2022
- Volkov VV
On the Tactics of Ab Initio Search for the Shape of Protein Particles from SAXS Data.
Crystallogr Rep, 66:819–827, 2021
- Ding C, Wang S, Zhang Z
Integrating an Enhanced Sampling Method and Small-Angle X-Ray Scattering to Study Intrinsically Disordered Proteins.
Front Mol Biosci, 8:621128, 15 Apr 2021
- Zhigunov A, Pleštil J
Estimation of the molecular weight of nanoparticles using a single small-angle X-ray scattering measurement on a relative scale.
Sci Rep, 11(1):7734, 08 Apr 2021
- Meisburger SP, Xu D, Ando N
REGALS: a general method to deconvolve X-ray scattering data from evolving mixtures.
IUCrJ, 8(2):225–237, 06 Feb 2021
- Hermann MR, Hub JS
Interpreting SAXS/WAXS Data with Explicit-Solvent Simulations: A Practical Guide.
Methods Mol Biol, 2168:199-215, 2020
- Graewert MA, Da Vela S, Gräwert TW, Molodenskiy DS, Blanchet CE, Svergun DI, Jeffries CM
Adding Size Exclusion Chromatography and Light Scattering Devices to Obtain High-Quality SAXS Data.
Crystals, 10:975, 27 October 2020
- He H, Liu C, Liu H
Model Reconstruction from Small-Angle X-Ray Scattering Data Using Deep Learning Methods.
iScience, 23(3):100906, 13 Feb 2020
- Prior C, Davies OR, Bruce D, Pohl E
Obtaining Tertiary Protein Structures by the ab Initio Interpretation of Small Angle X-ray Scattering Data.
J Chem Theory Comput, 16(3):1985-2001, 18 Feb 2020
- Grant TD
Ab initio electron density determination directly from solution scattering data.
Nat Methods, 15:191–193, 29 January 2018
- Piiadov V, Ares de Araújo E, Oliveira Neto M, Craievich AF, Polikarpov I
SAXSMoW 2.0: Online calculator of the molecular weight of proteins in dilute solution from experimental SAXS data measured on a relative scale.
Protein Sci, 28(2):454-463, 13 Dec 2018
- Cai J, Sweeney AM
The Proof Is in the Pidan: Generalizing Proteins as Patchy Particles.
ACS Cent Sci, 4(7):840-853, 28 Jun 2018
- Burian M, Amenitsch H
Dummy-atom modelling of stacked and helical nanostructures from solution scattering data.
IUCrJ, 5(pt 4):390-401, 11 May 2018
- Du M, Jacobsen C
Relative merits and limiting factors for x-ray and electron microscopy of thick, hydrated organic materials.
Ultramicroscopy. 2018 Jan;184(Pt A):293-309
- Franke D, Jeffries CM, Svergun DI
Machine Learning Methods for X-Ray Scattering Data Analysis from Biomacromolecular Solutions.
Biophysical Journal 114, 2485–2492, June 5, 2018
- Kinjo AR, Bekker GJ, Wako H, Endo S, Tsuchiya Y, Sato H, Nishi H, Kinoshita K, Suzuki H, Kawabata T, Yokochi M, Iwata T, Kobayashi N, Fujiwara T, Kurisu G, Nakamura H
New tools and functions in data-out activities at Protein Data Bank Japan (PDBj).
Protein Sci, 27(1):95-102, 18 Sep 2017
- Houdayer J, Poitevin F
Reduction of small-angle scattering profiles to finite sets of structural invariants.
Acta Crystallogr A Found Adv, 73(pt 4):317-332, 09 Jun 2017
- Grudinin S, Garkavenko M, Kazennov A
Pepsi-SAXS: an adaptive method for rapid and accurate computation of small-angle X-ray scattering profiles.
Acta Crystallogr D Struct Biol, 73(pt 5):449-464, 27 Apr 2017
- Putnam CD
Guinier peak analysis for visual and automated inspection of small-angle X-ray scattering data.
J Appl Crystallogr, 49(pt 5):1412-1419, 04 Aug 2016
- Burger VM, Arenas DJ, Stultz CM
A Structure-free Method for Quantifying Conformational Flexibility in proteins.
Sci Rep, 6:29040, 30 Jun 2016
- Xia B, Mamonov A, Leysen S, Allen KN, Strelkov SV, Paschalidis ICh, Vajda S, Kozakov D
Accounting for observed small angle X-ray scattering profile in the protein-protein docking server ClusPro.
J Comput Chem, 36(20):1568-1572, 10 Jun 2015
