Below software programs which can be of use.
TraceDrawer – made to make decisions
The software TraceDrawer from Ridgeview Instruments AB helps scientists evaluate, summarize and present results from multiple real-time interaction experiments, and is compatible with most SPR instruments. Fit your curves to kinetic models to quantify interaction constants and to investigate binding mechanisms. Besides the streamlined workflow of kinetics/affinity analysis, TraceDrawer offers a flexibility rarely found in other evaluation software, including an extensive toolbox for data processing and curve comparisons.
- Quantify affinity and kinetics, with many models to choose from
- Process measured data
- Compare and present an overview of results from multiple experiments
- Create publishable figures
- Characterize competing molecules
- Simulate binding data
- Perform DMSO/solvent correction (add-on)
- Quantify concentrations (add-on)
- Investigate interaction heterogeneity (add-on)
LigandTracer Learning from Ridgeview Instruments AB is an interactive educational software about real-time interaction measurements. Each lesson explores a new aspect, such as assay setup, kinetic theory and data analysis. LigandTracer Learning lets the user simulate measurements and gives immediate feedback on the outcome, based on the user´s choice of concentration and incubation times. Instructive videos and supplementary background information are included for additional support. A final test let the user confirm knowledge transfer and receive a personal diploma.
Anabel (Analysis of binding events + l is an open source online software tool for convenient analysis of molecular binding interactions. Currently, exported datasets from Biacore (surface plasmon resonance [SPR]), FortéBio (biolayer interference [BLI]), and Biametrics (single color reflectometry [SCORE]) can be uploaded and evaluated in Anabel using 2 different evaluation methods. Moreover, a universal data template format is provided to upload any other binding dataset to Anabel.
The program can be used from a browser and a download from Github is available to install locally.
The Anabel site also gives a nice explanation about fitting and how to select the right parts of the curve.
The SPR-Simulation program is a standalone application to simulate kinetic interaction curves. The program draws the curves after the input of the kinetic rate constants, the analyte concentration and the association and dissociation times. Other features are the simulation of equilibrium sensorgrams and plotting an overlay over an imported sensorgram figure.
The BiaMethodWriter is a program to write the Biacore automation methods in a more interactive way. It works for the control software with the Biacore 2000/3000. The new T200 control software is newly designed and not compatible with BiaMethodWriter. This program uses pop-up menus and dialog boxes to fill in the different parts. Remembering these odd parameters is not necessary any more.
The program uses coloured text formatting which gives a better overview of the method and makes it easier to find errors. There is a connection between the method code and the vial places. BiaMethodWriter will fill in the vials in the racks only when they are used in the program.
The report function, will calculate the vial volumes and times used in the method. In addition, there is a summary of the cycles and injections. Both the method and report can be printed. Use a colour printer for the best results.
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The KD Assistant is programmed by Baoxian Li and is a small program to assist with the optimization of kinetics runs. The program can calculate the maximal analyte concentration to be used from one manual three-minute analyte injection. The input consists of the initial binding rate (slope), the response of the analyte injection and the analyte concentration.
The program deals also with the capturing level of the ligand and adjusts the analyte concentration accordingly.
Genedata Screener® for SPR analyzes surface plasmon resonance data from any instrument. Providing full control over every analysis step, the single-platform analysis system enables interactive adjustments with all dependent calculations automatically recalculated accordingly. Pre-processing is automated and any pre-processing step can then be adjusted from anywhere in the analysis process. Screener for SPR also provides extended diagnostics, graphical overviews, flexible annotations, and outlier rejection, with company-wide access to all experimental data from any SPR instrument. Combining SPR technology with Screener analysis workflow, Screener for SPR standardizes and automates raw data loading, pre-processing, analysis, result generation, and reporting, independent of sample throughput and application type. The workflow is tailored to SPR-specific output and contains built-in business logic to rapidly produce high-quality results. The system is proven to improve productivity by eliminating manual error-prone processes, and enabling faster software performance, centralized set-up and maintenance, and higher utilization of installed instruments.
Scrubber 2 is a commercial program of Biologic Software. The program can read and write Biosensor files. The purpose of the program is to align and clean the sensorgram data in a structured manner. It can for instance zero in x and y; subtracting reference channels and blanks. Version 2 extends the simple analysis with better models and with options to calculate mass transport rate. The whole sequence of aligning can be recorded and reused again like a macro.
BiaCalculations is an Excel file with the most used calculations in Biomolecular interaction analysis. It contains sections for calculations on conversions, immobilization, equilibrium, flow cell and diffusion. In addition, you can calculate dilution series and do some report-point transformations. And there is a simple simulation of the association and dissociation.
The formulas are explained in the BiaCalculation PDF-file.