TY - JOUR
T1 - SViMULATE
T2 - a computer program facilitating interactive, multi-mode simulation of analytical ultracentrifugation data
AU - Brautigam, Chad A.
N1 - Publisher Copyright:
© 2023, European Biophysical Societies' Association.
PY - 2023/7
Y1 - 2023/7
N2 - The ability to simulate sedimentation velocity (SV) analytical ultracentrifugation (AUC) experiments has proved to be a valuable tool for research planning, hypothesis testing, and pedagogy. Several options for SV data simulation exist, but they often lack interactivity and require up-front calculations on the part of the user. This work introduces SViMULATE, a program designed to make AUC experimental simulation quick, straightforward, and interactive. SViMULATE takes user-provided parameters and outputs simulated AUC data in a format suitable for subsequent analyses, if desired. The user is not burdened by the necessity to calculate hydrodynamic parameters for simulated macromolecules, as the program can compute these properties on the fly. It also frees the user of decisions regarding simulation stop time. SViMULATE features a graphical view of the species that are under simulation, and there is no limit on their number. Additionally, the program emulates data from different experimental modalities and data-acquisition systems, including the realistic simulation of noise for the absorbance optical system. The executable is available for immediate download.
AB - The ability to simulate sedimentation velocity (SV) analytical ultracentrifugation (AUC) experiments has proved to be a valuable tool for research planning, hypothesis testing, and pedagogy. Several options for SV data simulation exist, but they often lack interactivity and require up-front calculations on the part of the user. This work introduces SViMULATE, a program designed to make AUC experimental simulation quick, straightforward, and interactive. SViMULATE takes user-provided parameters and outputs simulated AUC data in a format suitable for subsequent analyses, if desired. The user is not burdened by the necessity to calculate hydrodynamic parameters for simulated macromolecules, as the program can compute these properties on the fly. It also frees the user of decisions regarding simulation stop time. SViMULATE features a graphical view of the species that are under simulation, and there is no limit on their number. Additionally, the program emulates data from different experimental modalities and data-acquisition systems, including the realistic simulation of noise for the absorbance optical system. The executable is available for immediate download.
KW - Analytical ultracentrifugation
KW - Computer simulations
KW - Proteins
KW - Sedimentation velocity
KW - Viral vectors
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U2 - 10.1007/s00249-023-01637-0
DO - 10.1007/s00249-023-01637-0
M3 - Article
C2 - 36890221
AN - SCOPUS:85149543702
SN - 0175-7571
VL - 52
SP - 293
EP - 302
JO - European Biophysics Journal
JF - European Biophysics Journal
IS - 4-5
ER -