Data format

The only required data are:

• The doses D in Gy.
• The cell distributions of dicentrics CX, where X can be 0, 1, 2, 3…

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.

Data format

The only requirement for the data is to be in .csv (or .txt) format and two have the following structure:

• The columns should include headers.
• The first column should be named D and contain the doses in Gy.
• The remaining columns should contain the cell distributions of dicentrics CX, where X can 0, 1, 2, 3…

An example of how the data should be formatted can be seen below.

D   ,C0  ,C1,C2,C3,C4,C5
0   ,4992,8 ,0 ,0 ,0 ,0
0.1 ,4988,14,0 ,0 ,0 ,0
0.25,1987,20,1 ,0 ,0 ,0
0.5 ,1947,55,0 ,0 ,0 ,0
0.75,1736,92,4 ,0 ,0 ,0
1   ,1064,99,5 ,0 ,0 ,0
1.5 ,474 ,76,12,0 ,0 ,0
2   ,251 ,63,17,2 ,0 ,0
3   ,104 ,72,15,2 ,0 ,0
4   ,35  ,41,21,4 ,2 ,0
5   ,11  ,19,11,9 ,6 ,3

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.

Data format

In case you don’t have access to the full dicentrics distribution, you can choose to only provide total number of dicentrics. In this case the required data are:

• The doses D in Gy.
• N is the total number of cells.
• X is the number of aberrations.

This can be input manually or using a .csv (or .txt) file:

D   ,N   ,X
0   ,5000,8
0.1 ,5002,14
0.25,2008,22
0.5 ,2002,55
0.75,1832,100
1   ,1168,109
1.5 ,562 ,100
2   ,333 ,103
3   ,193 ,108
4   ,103 ,103
5   ,59  ,107

Fitting formula

The objective of curve fitting is to determine those values of the coefficients \(C\), \(\alpha\) and \(\beta\) which best fit the data points.

• For low-LET radiation types there is very strong evidence that the yields of chromosome aberrations or micronuclei (\(\lambda\)) are related to dose (\(D\)) by the linear quadratic equation \(\lambda = C + \alpha D + \beta D^{2}\).

• For high-LET-radiation, the \(\alpha\) term becomes large and eventually the \(\beta\) term becomes biologically less relevant and also statistically ‘masked’ and the dose response fits better to a linear equation \(\lambda = C + \alpha D\).

The user should check which model fits better with its data. However, because at 0 Gy a certain amount of dicentrics exists (1–2 per thousand cells) it is suggested to fit the data using the intercept value \(C\).

Fitting model

Normally the Automatic option should be used.

• If there is overdispersion on the fitting, the quasi-Poission model will be used.
• Otherwise a Poisson model assuming equidispersion will be used.

With the automatic option, when the model dispersion index obtained in the fitting process is equal or lower than 1, a Poisson model is used. For values higher than 1, quasi-Poisson model is used instead.

Data format

The following parameters need to be input:

• Fitting formula.
• Coefficients.
• Standard error of the coefficients (optional).
• Variance-covariance matrix (optional).

To update the tables accordingly to the selected fitting formula, it’s necessary to click on Generate table.

Data format

The only requirement for the data is to be in .RDS format. This file can be generated in the Fitting module.

The RDS format creates a serialized version of any R object and then saves it with gzip compression. This ensures there is no loss of data in saving the object with fitting results, which contain:

• Original data set used for the calculation.
• Model used for the fitting.
• Calculated coefficients.
• Model-level statistics.
• Etc.

Data format

The only required data are:

• The cell distributions of dicentrics CX, where X can be 0, 1, 2, 3…

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• y is the observed yield, and y_err is its standard error.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.

Data format

The only requirement for the data is to be in .csv (or .txt) format and two have the following structure:

• The columns should include headers.
• The remaining columns should contain the cell distributions of dicentrics CX, where X can 0, 1, 2, 3…

An example of how the data should be formatted can be seen below.

C0 ,C1,C2,C3,C4,C5
104,72,15,2 ,0 ,0

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• y is the observed yield, and y_err is its standard error.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.

Data format

The only required data are:

• The doses D in Gy.
• The cell distributions of dicentrics CX, where X can be 0, 1, 2, 3…

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.

Data format

The only requirement for the data is to be in .csv (or .txt) format and two have the following structure:

• The columns should include headers.
• The first column should be named D and contain the doses in Gy.
• The remaining columns should contain the cell distributions of dicentrics CX, where X can 0, 1, 2, 3…

An example of how the data should be formatted can be seen below.

D   ,C0  ,C1,C2,C3,C4,C5
0   ,4992,8 ,0 ,0 ,0 ,0
0.1 ,4988,14,0 ,0 ,0 ,0
0.25,1987,20,1 ,0 ,0 ,0
0.5 ,1947,55,0 ,0 ,0 ,0
0.75,1736,92,4 ,0 ,0 ,0
1   ,1064,99,5 ,0 ,0 ,0
1.5 ,474 ,76,12,0 ,0 ,0
2   ,251 ,63,17,2 ,0 ,0
3   ,104 ,72,15,2 ,0 ,0
4   ,35  ,41,21,4 ,2 ,0
5   ,11  ,19,11,9 ,6 ,3

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.

Data format

In case you don’t have access to the full dicentrics distribution, you can choose to only provide total number of dicentrics. In this case the required data are:

• The doses D in Gy.
• N is the total number of cells.
• X is the number of aberrations.

This can be input manually or using a .csv (or .txt) file:

D   ,N   ,X
0   ,5000,8
0.1 ,5002,14
0.25,2008,22
0.5 ,2002,55
0.75,1832,100
1   ,1168,109
1.5 ,562 ,100
2   ,333 ,103
3   ,193 ,108
4   ,103 ,103
5   ,59  ,107

Fitting formula

The objective of curve fitting is to determine those values of the coefficients \(C\), \(\alpha\) and \(\beta\) which best fit the data points.

• For low-LET radiation types there is very strong evidence that the yields of chromosome aberrations or micronuclei (\(\lambda\)) are related to dose (\(D\)) by the linear quadratic equation \(\lambda = C + \alpha D + \beta D^{2}\).

• For high-LET-radiation, the \(\alpha\) term becomes large and eventually the \(\beta\) term becomes biologically less relevant and also statistically ‘masked’ and the dose response fits better to a linear equation \(\lambda = C + \alpha D\).

The user should check which model fits better with its data. However, because at 0 Gy a certain amount of dicentrics exists (1–2 per thousand cells) it is suggested to fit the data using the intercept value \(C\).

Fitting model

Normally the Automatic option should be used.

• If there is overdispersion on the fitting, the quasi-Poission model will be used.
• Otherwise a Poisson model assuming equidispersion will be used.

With the automatic option, when the model dispersion index obtained in the fitting process is equal or lower than 1, a Poisson model is used. For values higher than 1, quasi-Poisson model is used instead.

Data format

The following parameters need to be input:

• Fitting formula.
• Coefficients.
• Standard error of the coefficients (optional).
• Variance-covariance matrix (optional).

To update the tables accordingly to the selected fitting formula, it’s necessary to click on Generate table.

Data format

The only requirement for the data is to be in .RDS format. This file can be generated in the Fitting module.

The RDS format creates a serialized version of any R object and then saves it with gzip compression. This ensures there is no loss of data in saving the object with fitting results, which contain:

• Original data set used for the calculation.
• Model used for the fitting.
• Calculated coefficients.
• Model-level statistics.
• Etc.

Data format

The only required data are:

• The cell distributions of dicentrics CX, where X can be 0, 1, 2, 3…

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• Fp is the observed yield, and Fp_err is its standard error.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.
• Xc translocation frequency to be substracted from the observed yield.
• Fg is the full genome yield, and Fg_err is its standard error.

Note that Fg already takes into account the correction applied by the selected confounders.

Data format

The only requirement for the data is to be in .csv (or .txt) format and two have the following structure:

• The columns should include headers.
• The remaining columns should contain the cell distributions of dicentrics CX, where X can 0, 1, 2, 3…

An example of how the data should be formatted can be seen below.

C0 ,C1,C2,C3,C4,C5
104,72,15,2 ,0 ,0

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• Fp is the observed yield, and Fp_err is its standard error.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.
• Xc translocation frequency to be substracted from the observed yield.
• Fg is the full genome yield, and Fg_err is its standard error.

Note that Fg already takes into account the correction applied by the selected confounders.

Confounders

You may also choose from a list of confounders from Sigurdson (2008) to obtain the translocation frequency to be substracted from the observed yield, \(X_{c}\).

Likewise, a value for the translocation frequency per cell, \(TF\), can be provided manually.

Note that \(X_{c} = TF \cdot N \cdot f\), where

• \(N\) is the total number of cells.
• \(f\) is the genomic conversion factor.

Data format

The only required data are:

• The doses D in Gy.
• The cell distributions of dicentrics CX, where X can be 0, 1, 2, 3…

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.

Data format

The only requirement for the data is to be in .csv (or .txt) format and two have the following structure:

• The columns should include headers.
• The first column should be named D and contain the doses in Gy.
• The remaining columns should contain the cell distributions of dicentrics CX, where X can 0, 1, 2, 3…

An example of how the data should be formatted can be seen below.

D   ,C0  ,C1,C2,C3,C4,C5
0   ,4992,8 ,0 ,0 ,0 ,0
0.1 ,4988,14,0 ,0 ,0 ,0
0.25,1987,20,1 ,0 ,0 ,0
0.5 ,1947,55,0 ,0 ,0 ,0
0.75,1736,92,4 ,0 ,0 ,0
1   ,1064,99,5 ,0 ,0 ,0
1.5 ,474 ,76,12,0 ,0 ,0
2   ,251 ,63,17,2 ,0 ,0
3   ,104 ,72,15,2 ,0 ,0
4   ,35  ,41,21,4 ,2 ,0
5   ,11  ,19,11,9 ,6 ,3

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.

Data format

In case you don’t have access to the full dicentrics distribution, you can choose to only provide total number of dicentrics. In this case the required data are:

• The doses D in Gy.
• N is the total number of cells.
• X is the number of aberrations.

This can be input manually or using a .csv (or .txt) file:

D   ,N   ,X
0   ,5000,8
0.1 ,5002,14
0.25,2008,22
0.5 ,2002,55
0.75,1832,100
1   ,1168,109
1.5 ,562 ,100
2   ,333 ,103
3   ,193 ,108
4   ,103 ,103
5   ,59  ,107

Fitting formula

The objective of curve fitting is to determine those values of the coefficients \(C\), \(\alpha\) and \(\beta\) which best fit the data points.

• For low-LET radiation types there is very strong evidence that the yields of chromosome aberrations or micronuclei (\(\lambda\)) are related to dose (\(D\)) by the linear quadratic equation \(\lambda = C + \alpha D + \beta D^{2}\).

• For high-LET-radiation, the \(\alpha\) term becomes large and eventually the \(\beta\) term becomes biologically less relevant and also statistically ‘masked’ and the dose response fits better to a linear equation \(\lambda = C + \alpha D\).

The user should check which model fits better with its data. However, because at 0 Gy a certain amount of dicentrics exists (1–2 per thousand cells) it is suggested to fit the data using the intercept value \(C\).

Fitting model

Normally the Automatic option should be used.

• If there is overdispersion on the fitting, the quasi-Poission model will be used.
• Otherwise a Poisson model assuming equidispersion will be used.

With the automatic option, when the model dispersion index obtained in the fitting process is equal or lower than 1, a Poisson model is used. For values higher than 1, quasi-Poisson model is used instead.

Data format

The following parameters need to be input:

• Fitting formula.
• Coefficients.
• Standard error of the coefficients (optional).
• Variance-covariance matrix (optional).

To update the tables accordingly to the selected fitting formula, it’s necessary to click on Generate table.

Data format

The only requirement for the data is to be in .RDS format. This file can be generated in the Fitting module.

The RDS format creates a serialized version of any R object and then saves it with gzip compression. This ensures there is no loss of data in saving the object with fitting results, which contain:

• Original data set used for the calculation.
• Model used for the fitting.
• Calculated coefficients.
• Model-level statistics.
• Etc.

Data format

The only required data are:

• The cell distributions of dicentrics CX, where X can be 0, 1, 2, 3…

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• y is the observed yield, and y_err is its standard error.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.

Data format

The only requirement for the data is to be in .csv (or .txt) format and two have the following structure:

• The columns should include headers.
• The remaining columns should contain the cell distributions of dicentrics CX, where X can 0, 1, 2, 3…

An example of how the data should be formatted can be seen below.

C0 ,C1,C2,C3,C4,C5
104,72,15,2 ,0 ,0

The rest of columns will be calculated automatically after clicking Calculate parameters:

• N is the total number of cells.
• X is the number of aberrations.
• y is the observed yield, and y_err is its standard error.
• DI is the dispersion index \(\sigma^{2}/y\).
• u is the \(u\)-value, which for a Poisson distribution should be unity.