Mycobacterium Avium Complex

Submitted by dardaniy on

General overview

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Recommended Model

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ID Exposure Route # of Doses Agent Strain Dose Units Host type Μodel LD50/ID50 Optimized parameters Response type Reference
myco_intratracheal Intratracheal inoculation 3.00 MAC serotype 8 (Human-derived, AIDS Patient) CFU hamsters beta-Poisson 1.42E+8 a = 0.201 k = 4.87E-9 N50 = 1.42E+8 Disseminated infection
myco_intratracheal_2 Intratracheal inoculation 3.00 MAC serotype 8 (Human-derived, AIDS Patient) CFU hamsters beta-Poisson 7.93E+8 a = 0.048 N50 = 7.93E+8 Liver infection
Exposure Route:
Intratracheal inoculation
# of Doses:
3.00
Agent Strain:
MAC serotype 8 (Human-derived, AIDS Patient)
Dose Units:
CFU
Host type:
hamsters
Μodel:
beta-Poisson
LD50/ID50:
1.42E+8
Optimized parameters: a = 0.201 k = 4.87E-9 N50 = 1.42E+8
Response type:
Disseminated infection
Reference:
myco
Exposure Route:
Intratracheal inoculation
# of Doses:
3.00
Agent Strain:
MAC serotype 8 (Human-derived, AIDS Patient)
Dose Units:
CFU
Host type:
hamsters
Μodel:
beta-Poisson
LD50/ID50:
7.93E+8
Optimized parameters: a = 0.048 N50 = 7.93E+8
Response type:
Liver infection
Reference:
myco
 
Description
 
Host
Pig/ 8-10 weeks old
# of Doses
15.00
Μodel
exponential
LD50/ID50
4.19E+7
Dose Units
CFU
Response
Lesions or culture in lymph nodes
Exposure Route
intravenous
Contains Preferred Model
Status
fitted
k
1.65E-8
Experiment ID
myco_intravenous_4
Host type
pig
Description
Host
Pig/ 8-10 weeks old
# of Doses
15.00
Μodel
exponential
LD50/ID50
8.79E+6
Dose Units
CFU
Response
Lesions or culture in lymph nodes
Exposure Route
intravenous
Contains Preferred Model
Status
fitted
k
7.88E-8
Agent Strain
M. avium serotype II strain SSC 1323 (porcine-derived)
Experiment ID
myco_intravenous_3
Host type
pig
Description
myco_3.png
Host
Pig/ 8-10 weeks old
# of Doses
15.00
Μodel
exponential
LD50/ID50
7.49E+7
Dose Units
CFU
Response
Lesions or culture in lymph nodes
Exposure Route
intravenous
Contains Preferred Model
Status
fitted
k
9.26E-9
Agent Strain
M. avium serotype II strain SSC 1323 (porcine-derived
Experiment ID
myco_intravenous_3
Host type
pig
Experiment Dataset
Description
myco
Host
C57BL/6 beige mice/NS
# of Doses
5.00
Μodel
exponential
LD50/ID50
2.22E+8
Dose Units
CFU
Response
death
Exposure Route
intravenous
Contains Preferred Model
Status
fitted
k
3.12E-9
Agent Strain
MAC 101 (human-derived)
Experiment ID
myco_intravenous_2
Host type
mice
Experiment Dataset
Description
Mycobacterium_Avium_1
Host
Female C57BL/6 beige Mice/5 weeks
# of Doses
5.00
Μodel
exponential
LD50/ID50
6.30E+5
Dose Units
CFU
Response
Lung lesions
Exposure Route
intravenous
Contains Preferred Model
Status
fitted
k
1.10E-6
Agent Strain
M. avium serovar 1, human non- AIDS isolates: pooled strains N-289, N-356, N-357, N-364, N-445, N458, N-461; Serovar 9 strains N-254, N-302
Experiment ID
myco_intravenous
Host type
mice
Experiment Dataset

Naegleria fowleri: Dose Response Experiments

Submitted by admin on

General overview

Naegleria is a free-living amoeboflagellate that has three stages in its life cycle: trophozoite, cyst, and a temporary flagellate stage. Naegleria fowleri, a human pathogen, is thermophilic, tolerating temperatures of 40OC-45OC, while another species Naegleria gruberi is nonpathogenic, with an optimal growth temperature of 22OC-35OC.

ID Exposure Route # of Doses Agent Strain Dose Units Host type Μodel LD50/ID50 Optimized parameters Response type Reference
253 intravenous 3.00 LEE strain no of trophozoites mice exponential 1.64E+06 k = 4.21E-07 death
John, D. T., & Hoppe, K. L. (1990). Susceptibility of Wild Mammals to Infection with Naegleria fowleri. The Journal of Parasitology, 76, 6.
253, 254 intravenous 7.00 LEE strain no of trophozoites mice exponential 2.03E+06 k = 3.42E-07 death
Adams, A. C., John, D. T., & Bradley, S. G. (1976). Modification of resistance of mice to Naegleria fowleri infections. Infection and Immunity, 13, 1387–1391. Retrieved from http://iai.asm.org/content/13/5/1387.full.pdf+html
254 intravenous 4.00 LEE strain no of trophozoites mice exponential 2.26E+06 k = 3.07E-07 death
Couch, R. B., Cate, T. R., Douglas, R. G., Gerone, P. J., & . (1966). Effect of route of inoculation on experimental respiratory viral disease in volunteers and evidence for airborne transmission. Bacteriological Reviews, 30, 3.
Exposure Route:
intravenous
# of Doses:
3.00
Agent Strain:
LEE strain
Dose Units:
no of trophozoites
Host type:
mice
Μodel:
exponential
LD50/ID50:
1.64E+06
Optimized parameters: k = 4.21E-07
Response type:
death
Reference:
Susceptibility of Wild Mammals to Infection with Naegleria fowleri
mice/Naegleria fowleri LEE strain data 
Dose Dead Survived Total
2.5E+06 4 6 10
5E+06 19 1 20
1E+07 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 4.11 -9.67 2 3.84 
1 		5.99 
0.128
Beta Poisson 13.8 1 3.84 
0.000206
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 4.21E-07 2.77E-07 3.04E-07 3.25E-07 5.95E-07 6.79E-07 8.02E-07
ID50/LD50/ETC* 1.64E+06 8.65E+05 1.02E+06 1.16E+06 2.13E+06 2.28E+06 2.50E+06
*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

Highest quality
Exposure Route:
intravenous
# of Doses:
7.00
Agent Strain:
LEE strain
Dose Units:
no of trophozoites
Host type:
mice
Μodel:
exponential
LD50/ID50:
2.03E+06
Optimized parameters: k = 3.42E-07
Response type:
death
Reference:
Modification of resistance of mice to Naegleria fowleri infections.
mice/ Naegleria fowleri LEE strain model data 
Dose Dead Survived Total
1E+06 4 16 20
2.5E+06 4 6 10
2.5E+06 12 8 20
5E+06 19 1 20
5E+06 14 6 20
1E+07 10 0 10
1E+07 20 0 20

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential 8.85 -0.000501 6 3.84 
1 		12.6 
0.182
Beta Poisson 8.85 5 11.1 
0.115
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 3.42E-07 2.57E-07 2.75E-07 2.84E-07 4.15E-07 4.34E-07 4.67E-07
ID50/LD50/ETC* 2.03E+06 1.48E+06 1.60E+06 1.67E+06 2.44E+06 2.52E+06 2.70E+06
*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:
intravenous
# of Doses:
4.00
Agent Strain:
LEE strain
Dose Units:
no of trophozoites
Host type:
mice
Μodel:
exponential
LD50/ID50:
2.26E+06
Optimized parameters: k = 3.07E-07
Response type:
death
Reference:
Effect of route of inoculation on experimental respiratory viral disease in volunteers and evidence for airborne transmission
Mice/Naegleria fowleri LEE strain data 
Dose Dead Survived Total
1E+06 4 16 20
2.5E+06 12 8 20
5E+06 14 6 20
1E+07 20 0 20

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential 3.47 -0.000862 3 3.84 
1 		7.81 
0.325
Beta Poisson 3.47 2 5.99 
0.177
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 3.07E-07 2.11E-07 2.31E-07 2.41E-07 3.98E-07 4.21E-07 4.68E-07
ID50/LD50/ETC* 2.26E+06 1.48E+06 1.65E+06 1.74E+06 2.88E+06 3.01E+06 3.28E+06
*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

Description
Mice/Naegleria fowleri LEE strain data 
Dose Dead Survived Total
1E+06 4 16 20
2.5E+06 12 8 20
5E+06 14 6 20
1E+07 20 0 20

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential 3.47 -0.000862 3 3.84 
1 		7.81 
0.325
Beta Poisson 3.47 2 5.99 
0.177
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 3.07E-07 2.11E-07 2.31E-07 2.41E-07 3.98E-07 4.21E-07 4.68E-07
ID50/LD50/ETC* 2.26E+06 1.48E+06 1.65E+06 1.74E+06 2.88E+06 3.01E+06 3.28E+06
*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
4.00
Μodel
exponential
LD50/ID50
2.26E+06
Dose Units
no of trophozoites
Response
death
Exposure Route
intravenous
Contains Preferred Model
k
3.07E-07
Agent Strain
LEE strain
Experiment ID
254
Host type
mice
Description
mice/ Naegleria fowleri LEE strain model data 
Dose Dead Survived Total
1E+06 4 16 20
2.5E+06 4 6 10
2.5E+06 12 8 20
5E+06 19 1 20
5E+06 14 6 20
1E+07 10 0 10
1E+07 20 0 20

 

Goodness of fit and model selection
Model Deviance Δ Degrees 
of freedom		 χ20.95,1 
p-value 		χ20.95,m-k 
p-value
Exponential 8.85 -0.000501 6 3.84 
1 		12.6 
0.182
Beta Poisson 8.85 5 11.1 
0.115
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 3.42E-07 2.57E-07 2.75E-07 2.84E-07 4.15E-07 4.34E-07 4.67E-07
ID50/LD50/ETC* 2.03E+06 1.48E+06 1.60E+06 1.67E+06 2.44E+06 2.52E+06 2.70E+06
*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
7.00
Μodel
exponential
LD50/ID50
2.03E+06
Dose Units
no of trophozoites
Response
death
Exposure Route
intravenous
Contains Preferred Model
k
3.42E-07
Agent Strain
LEE strain
Experiment ID
253, 254
Host type
mice
Description
mice/Naegleria fowleri LEE strain data 
Dose Dead Survived Total
2.5E+06 4 6 10
5E+06 19 1 20
1E+07 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 4.11 -9.67 2 3.84 
1 		5.99 
0.128
Beta Poisson 13.8 1 3.84 
0.000206
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 4.21E-07 2.77E-07 3.04E-07 3.25E-07 5.95E-07 6.79E-07 8.02E-07
ID50/LD50/ETC* 1.64E+06 8.65E+05 1.02E+06 1.16E+06 2.13E+06 2.28E+06 2.50E+06
*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
3.00
Μodel
exponential
LD50/ID50
1.64E+06
Dose Units
no of trophozoites
Response
death
Exposure Route
intravenous
Contains Preferred Model
k
4.21E-07
Agent Strain
LEE strain
Experiment ID
253
Host type
mice
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