DCE-MRI Data Analysis Tutorial


In this tutorial, we are going to explore how to quantify the haemodynamic parameters of DCE-MRI data using Quantiphyse. We will use the Tofts model to perform our analysis.

Data Preparation

First, we need to load the DCE-MRI data and the ROI file to Quantiphyse. Be sure to specify the DCE-MRI data as Data and ROI file as ROI. It is always helpful to check the timeseries of the DCE-MRI data using the Voxel analysis Widget:


Acquisition Parameters

If the timeseries of the data looks fine, the next step is to specify the sequence parameters for our analysis. Now load the Bayesian DCE widget.


We will see that the Bayesian DCE widget has been loaded onto the right hand side of the Quantiphyse interface.


A full description of the interface can be found in DCE modelling widget user interface.

Before we specify the acquisition parameters, we need to make sure that the correct data have been loaded. In the previous step, we have loaded the DCE-MRI data and a ROI map. In the Input data section, we need to tell Quantiphyse the data that we loaded:


Now we are going to specify the sequence parameter values. These values can be found in the protocol files or the metadata from the scanning session. Note: It is very important to specify these values accurately to ensure the correct analysis. If the data is from an external source, please consult the person who acquired the data.

In our case, we are going to use the following values:


In the AIF option, we are going to select Population (Parker). A detailed explanation on the different AIFs can be found in AIF options for Bayesian DCE modelling.

Model Options

After specifying the sequence parameters, the next step is to select the appropriate model to analyse the data. In this example, we are going to use Standard Tofts Model. A full description of the different models provided by Quantiphye can be found in Models available for Bayesian DCE modelling. We are also going to specify the T1 value. Note: T1 values vary in different tissues. Although is it difficult to have a very precise estimation of the T1 value of our tissue of interest, it is important to specify a value that is close to the actual T1 value to improve the quantification of the haemodynamic parameters in our analysis. We will leave the other options unchecked.


Run Modelling

At this point, we have finished the preparation for our analysis. Now click Run to start the analysis. Note: it may take a while to complete the analysis.