Description
Swiss webster mice /  Pseudomonas aeruginosa 
Dose Infection (keratitis)

Not Infection (keratitis)

 Total
1E+04 0 8 8
1E+05 1 9 10
1E+06 1 7 8
1E+07 5 5 10
1E+08 10 0 10

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential

3.6

 0.134 4 3.84 
0.715 		9.49 
0.464
Beta Poisson

3.46

 3 7.81 
0.326
Exponential is preferred to beta-Poisson; cannot reject good fit for exponential.

 

Optimized k parameter for the exponential model, from 10000 bootstrap iterations
Parameter MLE estimate Percentiles
0.5% 2.5% 5% 95% 97.5% 99.5%
k 8.8E-08 3.31E-08 3.89E-08 4.53E-08 1.58E-07 1.94E-07 2.47E-07
ID50/LD50/ETC* 7.88E+06 2.81E+06 3.57E+06 4.38E+06 1.53E+07 1.78E+07 2.09E+07
*Not a parameter of the exponential model; however, it facilitates comparison with other models.

 

Parameter histogram for exponential model (uncertainty of the parameter)

Exponential model plot, with confidence bounds around optimized model

# of Doses
5.00
Μodel
exponential
LD50/ID50
7.88E+06
Dose Units
CFU
Response
infection (Keratitis)
Exposure Route
contact lens
Contains Preferred Model
k
8.8E-08
Agent Strain
ATCC 19660
Experiment ID
286
Host type
Swiss webster mice
Description
White rabbit /  Pseudomonas aeruginosa 
Dose Severe Stromal Ulceration

Not Corneal Ulceration

 Total
63.2 0 5 5
2220 2 3 5
13200 1 4 5
78000 1 4 5
462000 4 1 5

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential

13.2

 8.73 4 3.84 
0.00313  		9.49 
0.0105
Beta Poisson

4.43

 3 7.81 
0.219
Beta-Poisson fits better than exponential; cannot reject good fit for beta-Poisson.

 

Optimized parameters for the beta-Poisson model, from 10000 bootstrap iterations
Parameter MLE estimate Percentiles
0.5% 2.5% 5% 95% 97.5% 99.5%
α 1.09E-01 4.05E-02 5.23E-02 5.72E-02 9.05E+06 4.82E+07 2.53E+12
N50 1.52E+05 4.66E+03 1.13E+04 1.55E+04 1.55E+07 6.25E+07 1.96E+09

 

Parameter histogram for exponential model (uncertainty of the parameter)

Exponential model plot, with confidence bounds around optimized model

# of Doses
5.00
Μodel
beta-Poisson
N50
1.52E+05
LD50/ID50
1.52E+05
Dose Units
CFU
Response
Severe stromal ulceration
Exposure Route
contact lens
Contains Preferred Model
a
1.09E-01
Experiment ID
298
Host type
white rabbit
Description
White rabbit /  Pseudomonas aeruginosa 
Dose Corneal Ulceration

Not Corneal Ulceration

 Total
63.2 0 5 5
2220 2 3 5
13200 3 2 5
78000 3 2 5
462000 5 0 5

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential

9.41

 7.02 4 3.84 
0.00807  		9.49 
0.0516
Beta Poisson

2.39

 3 7.81 
0.495
Beta-Poisson fits better than exponential; cannot reject good fit for beta-Poisson.

 

Optimized parameters for the beta-Poisson model, from 10000 bootstrap iterations
Parameter MLE estimate Percentiles
0.5% 2.5% 5% 95% 97.5% 99.5%
α 3.55E-01 1.53E-01 1.76E-01 1.91E-01 4.52E+00 1.73E+07 1.35E+11
N50 6.57E+03 7.71E+02 1.44E+03 1.70E+03 2.55E+04 4.30E+04 8.32E+04

 

Parameter histogram for exponential model (uncertainty of the parameter)

Exponential model plot, with confidence bounds around optimized model

# of Doses
5.00
Μodel
beta-Poisson
N50
6.57E+03
LD50/ID50
6.57E+03
Dose Units
CFU
Response
corneal ulceration
Exposure Route
contact lens
Contains Preferred Model
a
3.55E-01
Experiment ID
297
Host type
white rabbit
Description
Pooled data of White rabbit /  Pseudomonas aeruginosa 
Dose Corneal Ulceration

Not Corneal Ulceration

 Total
63.2 0 5 5
63.2 0 5 5
2220 2 3 5
2220 2 3 5
13200 3 2 5
13200 1 4 5
78000 3 2 5
78000 1 4 5
462000 5 0 5
462000 4 1 5

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential

30.9

 20.8 9 3.84 
5.11e-06  		16.9 
0.000312
Beta Poisson

10.1

 8 15.5 
0.26
Beta-Poisson fits better than exponential; cannot reject good fit for beta-Poisson.

 

Optimized parameters for the beta-Poisson model, from 10000 bootstrap iterations
Parameter MLE estimate Percentiles
0.5% 2.5% 5% 95% 97.5% 99.5%
α 1.9E-01 9.63E-02 1.15E-01 1.24E-01 3.86E-01 5.51E-01 2.50E+00
N50 1.85E+04 3.18E+03 4.73E+03 6.01E+03 7.05E+04 8.98E+04 1.97E+05

 

Parameter histogram for exponential model (uncertainty of the parameter)

Exponential model plot, with confidence bounds around optimized model

# of Doses
10.00
Μodel
beta-Poisson
N50
1.85E+04
LD50/ID50
1.85E+04
Dose Units
CFU
Response
corneal ulceration
Exposure Route
contact lens
Contains Preferred Model
a
1.9E-01
Experiment ID
297 & 298
Host type
white rabbit

Pseudomonas aeruginosa (Contact lens): Dose Response Models

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General Overview

Pseudomonas aeruginosa is a Gram-negative, aerobic rod belonging to the bacterial family Pseudomonadaceae. Like other members of the genus, Pseudomonas aeruginosa is a free-living bacterium, commonly found in soil, water and biofilms. However, it occurs regularly on the surfaces of plants and occasionally on the surfaces of animals. Pseudomonas aeruginosa is an opportunistic pathogen, meaning that it exploits some break in the host defenses to initiate an infection.

ID Exposure Route # of Doses Agent Strain Dose Units Host type Μodel LD50/ID50 Optimized parameters Response type Reference
286 contact lens 5.00 ATCC 19660 CFU Swiss webster mice exponential 7.88E+06 k = 8.8E-08 infection (Keratitis)
Hazlett, L. D., Rosen, D. D., & Berk, R. S. (1978). Age-Related Susceptibility to Pseudomonas aeruginosa Ocular Infections in Mice. Infection and Immunity, 20, 1.
297 contact lens 5.00 CFU white rabbit beta-Poisson 6.57E+03 a = 3.55E-01 N50 = 6.57E+03 corneal ulceration
Lawin-Brüssel, C. A., Refojo, M. F., Leong, F. L., Hanninen, L. ., & Kenyon, K. R. (1993). Effect of Pseudomonas aeruginosa concentration in experimental contact lens-related microbial keratitis. Cornea, 12, 1.
297 & 298 contact lens 10.00 CFU white rabbit beta-Poisson 1.85E+04 a = 1.9E-01 N50 = 1.85E+04 corneal ulceration
Lawin-Brüssel, C. A., Refojo, M. F., Leong, F. L., Hanninen, L. ., & Kenyon, K. R. (1993). Effect of Pseudomonas aeruginosa concentration in experimental contact lens-related microbial keratitis. Cornea, 12, 1.
298 contact lens 5.00 CFU white rabbit beta-Poisson 1.52E+05 a = 1.09E-01 N50 = 1.52E+05 Severe stromal ulceration
Lawin-Brüssel, C. A., Refojo, M. F., Leong, F. L., Hanninen, L. ., & Kenyon, K. R. (1993). Effect of Pseudomonas aeruginosa concentration in experimental contact lens-related microbial keratitis. Cornea, 12, 1.
Exposure Route:
contact lens
# of Doses:
5.00
Agent Strain:
ATCC 19660
Dose Units:
CFU
Host type:
Swiss webster mice
Μodel:
exponential
LD50/ID50:
7.88E+06
Optimized parameters: k = 8.8E-08
Response type:
infection (Keratitis)
Reference:
Age-Related Susceptibility to Pseudomonas aeruginosa Ocular Infections in Mice
Swiss webster mice /  Pseudomonas aeruginosa 
Dose Infection (keratitis)

Not Infection (keratitis)

 Total
1E+04 0 8 8
1E+05 1 9 10
1E+06 1 7 8
1E+07 5 5 10
1E+08 10 0 10

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential

3.6

 0.134 4 3.84 
0.715 		9.49 
0.464
Beta Poisson

3.46

 3 7.81 
0.326
Exponential is preferred to beta-Poisson; cannot reject good fit for exponential.

 

Optimized k parameter for the exponential model, from 10000 bootstrap iterations
Parameter MLE estimate Percentiles
0.5% 2.5% 5% 95% 97.5% 99.5%
k 8.8E-08 3.31E-08 3.89E-08 4.53E-08 1.58E-07 1.94E-07 2.47E-07
ID50/LD50/ETC* 7.88E+06 2.81E+06 3.57E+06 4.38E+06 1.53E+07 1.78E+07 2.09E+07
*Not a parameter of the exponential model; however, it facilitates comparison with other models.

 

Parameter histogram for exponential model (uncertainty of the parameter)

Exponential model plot, with confidence bounds around optimized model

Exposure Route:
contact lens
# of Doses:
5.00
Agent Strain:
Dose Units:
CFU
Host type:
white rabbit
Μodel:
beta-Poisson
LD50/ID50:
6.57E+03
Optimized parameters: a = 3.55E-01 N50 = 6.57E+03
Response type:
corneal ulceration
Reference:
Effect of Pseudomonas aeruginosa concentration in experimental contact lens-related microbial keratitis
White rabbit /  Pseudomonas aeruginosa 
Dose Corneal Ulceration

Not Corneal Ulceration

 Total
63.2 0 5 5
2220 2 3 5
13200 3 2 5
78000 3 2 5
462000 5 0 5

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential

9.41

 7.02 4 3.84 
0.00807  		9.49 
0.0516
Beta Poisson

2.39

 3 7.81 
0.495
Beta-Poisson fits better than exponential; cannot reject good fit for beta-Poisson.

 

Optimized parameters for the beta-Poisson model, from 10000 bootstrap iterations
Parameter MLE estimate Percentiles
0.5% 2.5% 5% 95% 97.5% 99.5%
α 3.55E-01 1.53E-01 1.76E-01 1.91E-01 4.52E+00 1.73E+07 1.35E+11
N50 6.57E+03 7.71E+02 1.44E+03 1.70E+03 2.55E+04 4.30E+04 8.32E+04

 

Parameter histogram for exponential model (uncertainty of the parameter)

Exponential model plot, with confidence bounds around optimized model

Highest quality
Exposure Route:
contact lens
# of Doses:
10.00
Agent Strain:
Dose Units:
CFU
Host type:
white rabbit
Μodel:
beta-Poisson
LD50/ID50:
1.85E+04
Optimized parameters: a = 1.9E-01 N50 = 1.85E+04
Response type:
corneal ulceration
Reference:
Effect of Pseudomonas aeruginosa concentration in experimental contact lens-related microbial keratitis
Pooled data of White rabbit /  Pseudomonas aeruginosa 
Dose Corneal Ulceration

Not Corneal Ulceration

 Total
63.2 0 5 5
63.2 0 5 5
2220 2 3 5
2220 2 3 5
13200 3 2 5
13200 1 4 5
78000 3 2 5
78000 1 4 5
462000 5 0 5
462000 4 1 5

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential

30.9

 20.8 9 3.84 
5.11e-06  		16.9 
0.000312
Beta Poisson

10.1

 8 15.5 
0.26
Beta-Poisson fits better than exponential; cannot reject good fit for beta-Poisson.

 

Optimized parameters for the beta-Poisson model, from 10000 bootstrap iterations
Parameter MLE estimate Percentiles
0.5% 2.5% 5% 95% 97.5% 99.5%
α 1.9E-01 9.63E-02 1.15E-01 1.24E-01 3.86E-01 5.51E-01 2.50E+00
N50 1.85E+04 3.18E+03 4.73E+03 6.01E+03 7.05E+04 8.98E+04 1.97E+05

 

Parameter histogram for exponential model (uncertainty of the parameter)

Exponential model plot, with confidence bounds around optimized model

Exposure Route:
contact lens
# of Doses:
5.00
Agent Strain:
Dose Units:
CFU
Host type:
white rabbit
Μodel:
beta-Poisson
LD50/ID50:
1.52E+05
Optimized parameters: a = 1.09E-01 N50 = 1.52E+05
Response type:
Severe stromal ulceration
Reference:
Effect of Pseudomonas aeruginosa concentration in experimental contact lens-related microbial keratitis
White rabbit /  Pseudomonas aeruginosa 
Dose Severe Stromal Ulceration

Not Corneal Ulceration

 Total
63.2 0 5 5
2220 2 3 5
13200 1 4 5
78000 1 4 5
462000 4 1 5

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential

13.2

 8.73 4 3.84 
0.00313  		9.49 
0.0105
Beta Poisson

4.43

 3 7.81 
0.219
Beta-Poisson fits better than exponential; cannot reject good fit for beta-Poisson.

 

Optimized parameters for the beta-Poisson model, from 10000 bootstrap iterations
Parameter MLE estimate Percentiles
0.5% 2.5% 5% 95% 97.5% 99.5%
α 1.09E-01 4.05E-02 5.23E-02 5.72E-02 9.05E+06 4.82E+07 2.53E+12
N50 1.52E+05 4.66E+03 1.13E+04 1.55E+04 1.55E+07 6.25E+07 1.96E+09

 

Parameter histogram for exponential model (uncertainty of the parameter)

Exponential model plot, with confidence bounds around optimized model

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