Index

Symbols

(dc/dt) functions 2-D and 3-D assessments 2-D and 3-D plots 2-Dimensional spectrum analysis 2-Dimensional spectrum analysis module

2-Dimensional spectrum analysis process (2DSA) 2DSA 2DSA controls 2DSA refinement 3-Dimensional plot controls 6- and 8- channel centerpieces

A

Add analyte spectrum Add buffer spectrum Add new buffer steps Add new rotor Add new solution steps Add rotor calibration Adjust separation tolerance (optional) Adv. config. functions Adv. functions Advance controls functions Advanced analysis control Advanced analysis dialog Advanced configuration panel Advanced control functions

Advanced lab/rotor/calibration Advanced model list options Analysis control functions Analysis of analytical buoyancy density equilibrium data Analysis of interacting solutes Analysis profile/report settings Analyte profile - general Analyte sel. functions Analyte settings panel Analyte settings tab Aprofile (analysis profile), [1] Assessment of the sedimentation velocity meta-data Association parameters Audit trail Automated gmp workflow setup

B

Beckman (tar.gz) to OpenAUC data converter Beckman optima data viewer Beckman to OpenAUC data converter Buffer edit functions

Buffer new functions Buffer sel. functions Buffer set. functions Buffer settings tab Buoyancy equilibrium data analysis

C

Cells, [1], [2] Cells functions Cells panel Cells: define cell centerpieces and windows Checklist to save Clip Color configuration panel Color gradient generator Combine vhw functions Common dialogs of UltraScan-III

Common plot controls Component parameters Configuration functions Create a grid Create basis spectra for each species Create global model Create project process Create setup control Custom grid editor (cg) Custom grid functions

D

Data acquisition Data analysis Data loader Data management functions Data management process Data set selection Data validation Data viewer functions Data viewer process Data/residuals viewer Data/residuals viewer functions Database configuration panel Database project tab Deconvolute mw data using species basis spectra Define another experiment Define the constraints

Define the model Density matching Density matching model parameters Dialog items Dialog sections Discrete dis. functions Discrete distributions combined plots Discrete model genetic algorithm Discrete model genetic algorithm constraints Distribution information units, [1] Dm functions Dm. model para. functions DMGA component parameters DMGA constraint functions DMGA process DMGA-mc advanced analysis DMGA-mc functions

E

Edit analyte spectrum Edit buffer panel Edit buffer spectrum Edit existing analyte panel Edit existing analyte tab Edit existing buffer tab Edit existing solution tab Edit experimental data, [1] Edit functions Edit multi-wavelength (mwl) data Edit run information Edit screen Edit solution panel Edit specific scans Edit UltraScan data

Editing steps Editing steps specific to mwl Enter new analyte panel Enter new analyte tab Enter new buffer panel Enter new buffer tab Enter new solution panel Enter new solution tab Est. equilibrium time functions Estimating equilibrium time Example color schemes and plots Exclusion profile Experimental parameters Experimental space Export data in legacy format

F

Fe viewer functions Finite element model simulation Finite element model statistics and metrics Finite element model viewer Finite element model viewer module Fit controls Fit controls for varying vbar 2DSA Fit meniscus Fit meniscus functions

Fitting analysis process Fitting controls functions Flowchart for the analysis of density matching sedimentation velocity data Flowchart for the analysis of multi-wavelength sedimentation velocity data Flowchart for the analysis of sedimentation velocity data Fluorescence data file manager Font configuration panel Functions specific to mwl Functions specific to varying vbar

G

Ga functions General, [1], [2], [3] General functions General panel General: create experiment Genetic algorithm analysis - (optional) Getting started Glob. eq. functions

Global equilibrium analysis - unlinked Gmp authorized user roles and permissions Gmp data acquisition Gmp e-signatures Gmp report generator and viewer Good manufacturing practices (gmp) data acquisition Grid setup control Grid spacing

H

How to manage rotors and rotor calibration files

How to use this program

I

Import and convert single and multi-wavelength experimental data Import and edit the issf- data file Import and edit the ssf-issf- data files Import experimental data Import experimental data into UltraScan-III OpenAUC format, [1] Import ramp data - to remove program Initialize genetic algorithm

Input/output controls Inspect and plot the raw data Instrument preference panel Integral dis. functions Integral distributions combined plots Integration and report settings Item row context menu options

K

Keys to control view

L

Lab/rotor, [1] Lab/rotor functions Lab/rotor panel Lab/rotor: define lab and rotor conditions License functions LIMS import, [1] LIMS import functions

Load distribution model Load gmp report from db (.pdf) Load gmp run Load protocol Load run functions Load the run Load UltraScan-III runs Loading data

M

Main window functions Manage analyte information Manage buffer information Manage data functions Manage data in database and on local disk Manage optima runs Manage personal information Manage project information Manage rotor information Manage solution information Manage solutions Master password panel Model assessment Model assoc. functions Model associations Model comp. functions Model components Model controls Model editor functions Model line functions

Model lines plot for PCSA Model parameters Model solute 3-Dimensional viewer Modeling for shapes Modify cell/channel/wavelength (c/c/w) info Modify run id (optional) Multi-wavelength data Multi-wavelength data viewing, analysis and reporting Multi-wavelength raw data viewer Multi-wavelength s spectra viewer Mwl pre-fit species functions Mwl pre-fit species process Mwl pre-fit species simulation Mwl species fit analysis Mwl species fit functions Mwl species fit process Mwl spectra viewer advanced controls Mwl spectra viewer functions Mwl spectra viewer plot controls Mwl viewer functions Mwl viewer process

N

New solution functions

Noise data analysis Noise vector selection

O

OpenAUC converter functions Optics, [1], [2] Optics panel

Optics: define optical system scan types Overall process Overlay combined distributions - (recommended), [1] Overview of UltraScan-III

P

Panel tab options, [1], [2], [3], [4], [5], [6], [7] Parametrically constrained spectrum analysis, [1] Parametrically constrained spectrum analysis fitting controls Parametrically constrained spectrum analysis results PCSA PCSA advanced controls PCSA advanced controls - load record PCSA controls PCSA data residuals viewer PCSA fitting process PCSA functions PCSA process PCSA report PCSA settings Peak decom. functions Peak decomposition Peak editor Peak fitting Peak parameters Perform 2DSA monte carlo analysis - (recommended) Perform a 2DSA refinement following the 2DSA flowchart Perform a 2DSA with refinement only Perform a final 2DSA refinement Perform a time derivative analysis and find the limits of the s-value range

Perform DMGA monte carlo analysis Perform meniscus fit Perform monte carlo ga analysis - (optional) Perform parametrically constrained spectrum analysis (PCSA) - (optional) Perform van Holde-Weischet analysis - (recommended), [1] Plot control Plot control functions Plot controls Plot functions Plots Predict hydrodynamic parameters for 4 basic shapes Process, [1], [2], [3], [4], [5], [6], [7] Processes Processing different data types and datasets Profile norma. functions Profile normalization Projects functions Protocol development Psap process Pseudo 3-Dimensional distribution plots Pseudo-3-D functions Pseudo-absorbance conversion Pseudo-absorbance functions Pseudo-absorbance program

R

Radial intensity (ri) data Range functions Ranges, [1], [2] Ranges panel Ranges: define wavelengths and scanning range of cell radius Reference, [1], [2] Refine constraints Registration / license update panel Regularization parameter functions Regularization parameter scan and plot for PCSA Remove functions

Remove model distributions Report Report chooser/generator Report: fe match model simulation Reporting sv-data Research and development auc data acquisition module Residual bit map, [1] Residual plot dialog Review parameter results RMSD model query Rotor calibration Rotor stretch calibration utility

S

Sample model lines dialogs Sample regularization parameter scan dialogs Saving the data Scan controls Second moment data analysis Second moment functions Select analyte panel Select analyte tab Select and view rotor information Select buffer panel Select buffer steps Select buffer tab Select completed autoflow run Select investigator Select pre-filter Select project Select solution functions Select solution panel Select solution tab Select to delete Select wavelengths Self-assoc. simulator functions Self-association simulator Set up the lab and rotor information Set z-value function Setting up an experiment in the gmp module Settings Settings panel Shared panel functions, [1], [2], [3], [4], [5], [6], [7] Simulated a time-grid synchronized model based on 2DSA-it mwl models Simulation functions

Simulation module Simulation param. functions Simulation parameters Simulation process Simulation product output summary Simulation quality assessment Solution details, [1] Solution settings tab Solutions, [1], [2] Solutions panel Solutions: define the solutions per channel Spectrum decomposition Spectrum fitter Speed functions Speed selection Speeds, [1] Speeds panel Speeds: define speed and duration profiles Statistics Statistics file output Status Steps to compare experiment to fe models Subgrid control Submit, [1] Submit a 2DSA analysis request in usLIMS Submit functions Submit panel Submit the run Submit the run/save the protocol Submit: submission checklist and save protocol Submitting the run Summary

T

Time derivative (dc/dt) data analysis

Time state viewer Tips for initial 3,000 rpm checks

U

UltraScan model editor UltraScan vhw distribution plot UltraScan-III administrator UltraScan-III configuration and preference

UltraScan-III good manufacturing practices (gmp) UltraScan-III installation UltraScan-III results from sedimentation velocity data User roles and permissions

V

Van Holde-Weischet analysis steps Van Holde-Weischet combined plots Van Holde-Weischet enhanced analysis Vhw enhanced functions

View experiment details, [1] View or edit an existing grid View ranges, [1] Vwh dis. functions

W

Wavelength data

Welcome to UltraScan-III's documentation and resource! Window controls