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University of California, Santa Barbara *
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Course
127
Subject
Statistics
Date
Jan 9, 2024
Type
Pages
7
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PSTAT 127, Winter 2021
Sketch solutions to Additional Practice Problems that are posted To Help in Your Midterm Preparation.
Note: Every midterm exam is di
↵
erent.
These exercises should only be considered additional practice problems.
All material from lectures, sections, homeworks and reading is examinable, including the pre-requisite PSTAT 120A/B
and 126 foundational concepts we have built on (since the Gaussian linear regression model from 126 is a special case of
the GLM’s we study in 127).
1. Consider a single random variable
Y
with probability mass function
P
(
Y
=
y
)
=
(1
-
p
)
y
p ,
if
y
2
{
0
,
1
,
2
,
3
, . . .
}
for
p
2
(0
,
1). Write the above pdf in the exponential family form provided above. Show clear working.
P
(
Y
=
y
)
=
(1
-
p
)
y
p
= exp[ ln((1
-
p
)
y
p
) ] = exp[
y
ln(1
-
p
) + ln(
p
) ]
see below for the identification of the specific parts of the exponential family form.
Let
μ
=
E
(
Y
). Answer or fill in the following:
(a) Write down the canonical parameter
✓
in terms of
p
:
✓
= ln(1
-
p
).
(b) Now find
p
in terms of
✓
: (i.e., write
p
as a function of
✓
)
✓
= ln(1
-
p
)
()
e
✓
= 1
-
p
()
p
= 1
-
e
✓
(c)
b
(
✓
) =
-
ln(
p
) =
-
ln(1
-
e
✓
)
(d)
φ
=
1
(e)
a
(
φ
) =
1
(f)
c
(
y,
φ
) =
0
1
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2. Suppose that the number of dead budworms and number of alive budworms are counted in each of 12 containers
exposed to toxins, with log-dosages of the toxin given by ldose. The sex of budworms within each of the containers,
and the dosage of toxins are given below. The number of dead budworms are given by “numdead”, and the number
of alive budworms are given by “numalive”.
ldose <- rep(0:5, 2)
numdead <- c(1, 4, 9, 13, 18, 20, 0, 2, 6, 10, 12, 16)
sex <- factor(rep(c(‘‘M’’, ‘‘F’’), c(6, 6)))
SF <- cbind(numdead, numalive=20-numdead)
budworm5 <- glm(SF ~ -1 + sex + ldose, family=binomial)
>
ldose
[1] 0 1 2 3 4 5 0 1 2 3 4 5
> sex
[1] M M M M M M F F F F F F
Levels: F M
> summary(budworm5)
Call:
glm(formula = SF ~ -1 + sex + ldose, family = binomial)
Deviance Residuals:
Min
1Q
Median
3Q
Max
-1.10540
-0.65343
-0.02225
0.48471
1.42944
Coefficients:
Estimate Std. Error z value Pr(>|z|)
sexF
-3.4732
0.4685
-7.413 1.23e-13 ***
sexM
-2.3724
0.3855
-6.154 7.56e-10 ***
ldose
1.0642
0.1311
8.119 4.70e-16 ***
---
Signif. codes:
0 *** 0.001 ** 0.01 * 0.05 . 0.1
1
(Dispersion parameter for binomial family taken to be 1)
...
(a) Write down the model fitted in “budworm5”, and all the model assumptions, including distributional assump-
tions.
Let
Z
i
be the random variable giving the number dead in container
i
2
{
1
, . . . ,
12
}
, and let
⇡
i
be the
probability that a randomly selected budworm in container
i
dies. Model ”budworm5” is:
Z
i
indep
⇠
Binomial(20
,
⇡
i
)
for
i
= 1
, . . . ,
12
and let
Y
i
=
Z
i
/
20
for
i
= 1
, . . . ,
12
logit(
⇡
i
)
=
ln
✓
⇡
i
1
-
⇡
i
◆
= ln(odds
i
) =
↵
F
I
F
(
i
) +
↵
M
I
M
(
i
) +
β
ldose
i
where
I
F
(
i
)
=
⇢
1
if container
i
contains Females
0
otherwise
and
I
M
(
i
) =
⇢
1
if container
i
contains Males
0
otherwise
2
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(b) Use model “budworm5” to estimate the odds of a female budworm dying if “ldose” equals 3.
From (a)
,
d
odds
i
=
exp
⇣
ˆ
↵
F
I
F
(
i
) + ˆ
↵
M
I
M
(
i
) +
ˆ
β
ldose
i
⌘
So, for a container of 20 female budworms, at
ldose
= 3, an estimate of the odds of a randomly selected female
budworm dying equals
d
odds
(
Female, ldose
= 3)
=
exp (
-
3
.
4732 + 1
.
0642(3)) = 0
.
7553 (after rounding)
(c) Use model “budworm5” to estimate the expected number of budworms that would die in a container containing
20 female budworms, if ldose equals 3.
If container
i
is the container with 20 females at
ldose
= 3, then
b
E
(number of females dead in Female container at
ldose
= 3)
=
20ˆ
⇡
i
,
where ˆ
⇡
i
is the estimated probability of death corresponding to the estimated odds in part (2b).
If we use
notation ˆ
γ
i
=
d
odds
(
Female, ldose
= 3), then
✓
ˆ
⇡
i
1
-
ˆ
⇡
i
◆
=
ˆ
γ
i
()
ˆ
⇡
i
= ˆ
γ
i
(1
-
ˆ
⇡
i
)
()
ˆ
⇡
i
(1 + ˆ
γ
i
) = ˆ
γ
i
()
ˆ
⇡
i
=
ˆ
γ
i
(1 + ˆ
γ
i
)
So
ˆ
⇡
i
=
0
.
7553
(1 + 0
.
7553)
= 0
.
4303
,
and
b
E
(number of females dead in Female container at
ldose
= 3)
=
20ˆ
⇡
i
⇡
20(0
.
4303)
⇡
8
.
6059
.
Note: the expected value does not need
to be an integer. Several students took the additional incorrect step of
concluding that the expected number equals 9. Please ask if you have questions about expected values.
(d) What is the change in the
odds
of a female budworm dying if
ldose
increases from 3 to 4? Show working.
odds
(
Female, ldose
= 3)
=
exp (
↵
F
+
β
(3))
odds
(
Female, ldose
= 4)
=
exp (
↵
F
+
β
(4)) =
odds
(
Female, ldose
= 3)
⇥
exp(
β
)
So the
odds
of a Female dying at
ldose
= 4 is exp(
β
) times the
odds
for a Female dying at
ldose
= 3.
In terms of the estimates based on these data: exp(
ˆ
β
) = exp(1
.
0642) = 2
.
8958 (rounded).
Alternatively,
d
odds
(
Female, ldose
= 4)
-
d
odds
(
Female, ldose
= 3) = exp
⇣
ˆ
↵
F
+
ˆ
β
(3)
⌘
⇥
(exp(
ˆ
β
)
-
1) = 1
.
4340
.
(e) What is the change in the
probability
of a female budworm dying if ldose increases from 3 to 4? Show working.
If
γ
F,j
=
odds
(
Female, ldose
=
j
), and
⇡
F,j
= the probability a randomly selected Female dies at
ldose
=
j
,
then
✓
⇡
F,j
1
-
⇡
F,j
◆
=
γ
F,j
()
⇡
F,j
=
γ
F,j
(1 +
γ
F,j
)
.
So
⇡
F,
4
=
γ
F,
4
(1 +
γ
F,
4
)
=
(
γ
F,
3
)
e
β
(1 + (
γ
F,
3
)
e
β
)
From (2c), ˆ
⇡
F,
3
= 0
.
4303. Similarly, ˆ
⇡
F,
4
=
2
.
1893
(1+2
.
1893)
⇡
0
.
6865
.
So ˆ
⇡
F,
4
-
ˆ
⇡
F,
3
= 0
.
6865
-
0
.
4303 = 0
.
2562.
(f) Would the
di
↵
erence between predicted probabilities
of death for males and females be the same at
ldose=1, and at ldose=3? Why or why not? Draw a sketch/sketches with clear labels to justify your answer.
The di
↵
erences between the log(odds) between males and females would be the same at ldose=1 and ldose=3.
However, the di
↵
erences between predicted probabilities of death would not be equal, since logit is a non-linear
transformation. In your sketch, the Male and Female prediction lines should be parallel on the logit scale, but not
on the probability scale. You must clearly label all axes, not only sketch the pattern. You didn’t need to include
the following, but for completeness: the predictions based on the current data show that ˆ
⇡
M,
1
-
ˆ
⇡
M,
3
6
= ˆ
⇡
F,
1
-
ˆ
⇡
F,
3
:
d
odds
M,
1
=
exp
⇣
ˆ
↵
M
+
ˆ
β
(1)
⌘
= exp(
-
2
.
3724 + 1
.
0642(1))
⇡
0
.
2703
,
so
ˆ
⇡
M,
1
⇡
0
.
2703
(1 + 0
.
2703)
= 0
.
2128
d
odds
M,
3
=
exp
⇣
ˆ
↵
M
+
ˆ
β
(3)
⌘
= exp(
-
2
.
3724 + 1
.
0642(3))
⇡
2
.
2710
,
so
ˆ
⇡
M,
3
⇡
2
.
2710
(1 + 2
.
2710)
= 0
.
6943
d
odds
F,
1
=
exp
⇣
ˆ
↵
F
+
ˆ
β
(1)
⌘
= exp(
-
3
.
4732 + 1
.
0642(1))
⇡
0
.
0899
,
so
ˆ
⇡
F,
1
⇡
0
.
0899
(1 + 0
.
0899)
= 0
.
0825
d
odds
F,
3
=
exp
⇣
ˆ
↵
F
+
ˆ
β
(1)
⌘
= exp(
-
3
.
4732 + 1
.
0642(3))
⇡
0
.
7553
,
so
ˆ
⇡
F,
3
⇡
0
.
7533
(1 + 0
.
7533)
= 0
.
4303
(rounded)
3
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3. Suppose that Mary has data
{
(
x
i
, y
i
) :
i
= 1
, . . . ,
200
}
, where
y
i
2
(0
,
1) for all
i
2
{
1
, . . . ,
200
}
. She recently started
learning R, and considers fitting two models (fit1 and fit2 below):
ynew <- log( y/ (1-y) )
# Note: the default log in R, is the natural log (i.e., log base e)
fit1 <- lm( ynew ~ x )
# Note that fit1 is using R command "lm"
# ==========================
fit2 <- glm( y ~ x, family = gaussian( link="logit") )
Write down the models and assumptions for each of models “fit1” and “fit2”, and explain the di
↵
erences between
these models and their assumptions.
[25 points]
Note that the observed
y
i
values all lie in the open interval (0
,
1), i.e., strictly between 0 and 1: 0
< y
i
<
1 for all
i
= 1
, . . . ,
200, based on the question above.
fit1:
logit(
Y
i
)
=
↵
+
β
x
i
+
✏
i
,
where
✏
i
iid
⇠
N
(0
,
σ
2
)
and
logit(
Y
i
) = ln
✓
Y
i
1
-
Y
i
◆
or equivalently:
If
Z
i
= logit(
Y
i
)
,
then
Z
i
indep
⇠
N
(
↵
+
β
x
i
,
σ
2
)
for
i
2
{
1
, . . . ,
200
}
. Note that
Z
i
= logit(
Y
i
) is Gaussian here, and that
Y
i
=
logit
-
1
(
↵
+
β
x
i
+
✏
i
).
fit1 could be written as a Gaussian Linear Model (in the sense of 126 material) for transformed response
Z
i
= logit(
Y
i
),
and therefore also as a GLM for transformed response variable
Z
i
with identify link. If you simulated from this model,
the resulting
y
i
values would all lie in the open interval (0
,
1).
fit2:
Y
i
indep
⇠
N
(
μ
i
,
σ
2
)
where
μ
i
=
E
(
Y
i
)
logit(
μ
i
)
=
γ
+
δ
x
i
where
logit(
μ
i
) = ln
✓
μ
i
1
-
μ
i
◆
for
i
2
{
1
, . . . ,
200
}
. That is,
Y
i
indep
⇠
N
✓
e
(
γ
+
δ
x
i
)
1 +
e
(
γ
+
δ
x
i
)
,
σ
2
◆
.
Notice that here
Y
i
=
logit
-
1
(
γ
+
δ
x
i
) +
✏
i
,
with
✏
i
iid
⇠
N
(0
,
σ
2
)
.
fit2 is a GLM with link
g
= logit, and
Y
i
is Gaussian here. Note: if you were simulating from model fit2, some of the
resulting simulated
y
i
values might actually take on values outside (0
,
1).
A common error: some students sometimes write down the models and assumptions, but forget to expand on di
↵
erences
between the models as asked.
4
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4. A study was run to investigate whether a statistical model could be used to predict the probability of a household
purchasing a new car within a 12-month period, based both on the income of the household and on the age of the
oldest car belonging to the household at the start of that 12 month period.
Data were collected from a random sample of
n
households.
Each household was asked the age of their oldest
automobile (variable labelled ”age” measured in years), and their income (variable labelled ”income”).
One year
later, a follow-up visit asked if the household had bought a new car in that 12 month period (variable ”purchase” -
coded as ”1” if they had bought a new car, and ”0” otherwise”).
Several models were fitted using R. Read the statistical analysis results below, and then answer the questions that
follow.
> fit1 <- glm(purchase ~ income + age, family=binomial(link=logit))
> summary(fit1)
Call:
glm(formula = purchase ~ income + age, family = binomial(link = logit))
Deviance Residuals:
Min
1Q
Median
3Q
Max
-1.6189
-0.8949
-0.5880
0.9653
2.0846
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -4.73931
2.10195
-2.255
0.0242 *
income
0.06773
0.02806
2.414
0.0158 *
age
0.59863
0.39007
1.535
0.1249
---
Signif. codes:
0 *** 0.001 ** 0.01 * 0.05 . 0.1
1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 44.987
on 32
degrees of freedom
Residual deviance: 36.690
on 30
degrees of freedom
AIC: 42.69
Number of Fisher Scoring iterations: 4
(a) What is the value of
n
(i.e., how many households are in our random sample)?
33
(b) Write down model ”fit1” and the assumptions of this model. Define all notation that you use.
Let
Y
i
= the random variable corresponding to ”purchase” for the
i
th
household, for
i
= 1
, . . . , n
where
n
= 33.
Y
i
indep
⇠
Bernoulli
(
⇡
i
) =
Binomial
(1
,
⇡
i
), where
μ
i
=
E
(
Y
i
) =
⇡
i
=
P
(
Y
i
= 1
|
x
i
1
, x
i
2
). In model ”fit1”,
g
(
μ
i
) =
logit
(
μ
i
) =
logit
(
⇡
i
) = ln
✓
⇡
i
1
-
⇡
i
◆
=
β
0
+
β
1
x
i
1
+
β
2
x
i
2
where
x
i
1
= income of the owner of the
i
th
household, and
x
i
2
= age of the oldest automobile in the
i
th
household,
for
i
2
{
1
, . . . ,
33
}
.
5
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(c) Based on the parameter estimates in model fit1, explain how the predicted
odds of buying a car
would di
↵
er
for 2 households that have identical incomes but cars that di
↵
er in ages by one year.
Consider household
A
which has income
x
1
=
a
and oldest automobile
x
2
=
c
years old, then using the parameter
estimates
ˆ
β
0
,
ˆ
β
1
and
ˆ
β
2
, the estimated odds of household
A
buying a new car in the next year is
d
odds(household A buys a new car) = exp[
ˆ
β
0
+
ˆ
β
1
a
+
ˆ
β
2
c
]
.
Consider household
B
which has income
x
1
=
a
and oldest automobile
x
2
= (
c
+1) years old, then the estimated
odds of household
B
buying a new car is
d
odds(household B buys a new car) = exp[
ˆ
β
0
+
ˆ
β
1
a
+
ˆ
β
2
(
c
+ 1)] =
d
odds(household A buys a new car) exp[
ˆ
β
2
]
.
That is, the estimated odds that household
B
buys a new car in the next year, is exp[
ˆ
β
2
] = exp[0
.
59863]
⇡
1
.
820
times the odds that household
A
buys a new car in the next year.
It is good if you also note that age is not significant in this model (in addition to giving the answer above).
> fit2 <- update(fit1, .~.-age)
> summary(fit2)
Call:
glm(formula = purchase ~ income, family = binomial(link = logit))
Deviance Residuals:
Min
1Q
Median
3Q
Max
-1.5883
-0.8430
-0.7121
0.9262
1.7688
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -1.98079
0.85720
-2.311
0.0208 *
income
0.04342
0.02011
2.159
0.0308 *
---
Signif. codes:
0 *** 0.001 ** 0.01 * 0.05 . 0.1
1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 44.987
on 32
degrees of freedom
Residual deviance: 39.305
on 31
degrees of freedom
AIC: 43.305
Number of Fisher Scoring iterations: 4
# ------------------------------------------------------------------------------------------------------
> round( vcov(fit2), digits=5 )
# vcov provides the variance-covariance matrix of the
(Intercept)
income
# main parameters in model fit2
(Intercept)
0.73478 -0.0154
income
-0.01540
0.0004
(d) Using the results of model ”fit2” (i.e., assuming model ”fit2” is the correct model for the answer to this part of
the question),
find a 99% confidence interval estimate for
β
income
. (Note: I would provide you with tables if asking this question
in the midterm.)
Using the approximate normality of
ˆ
β
, the form of a 99% confidence interval is
h
ˆ
β
income
±
z
0
.
005
se
(
ˆ
β
income
)
i
,
where
z
0
.
005
⇡
2
.
575,
ˆ
β
income
= 0
.
04342, and
se
(
ˆ
β
income
) = 0
.
02011.
Thus a 99% approximate confidence
interval for
β
income
is
[0
.
04342
-
2
.
575(0
.
02011)
,
0
.
04342 + 2
.
575(0
.
02011)]
⇡
[
-
0
.
00836
,
0
.
09520]
.
6
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(e)
i. Explain why I receive the following warning message when I run the following anova command in R.
> anova(fit2, fit1, test="F")
Analysis of Deviance Table
Model 1: purchase ~ income
Model 2: purchase ~ income + age
Resid. Df Resid. Dev Df Deviance
F Pr(>F)
1
31
39.305
2
30
36.690
1
2.6149 2.6149 0.1059
Warning message:
using F test with a ’binomial’ family is inappropriate
The approximate F test is inappropriate when you know the value of
φ
. We know that
φ
= 1 for the binomial
distribution. We should do an approximate nested
χ
2
test.
ii. How should I modify this anova command in order to obtain the p-value from an approximate hypothesis test
of
H
0
: Model corresponding to ”fit2”, versus
H
a
: Model corresponding to ”fit1” that we studied in lecture
(assuming that the random component distribution assumption in the GLM commands in this question is
correct)?
Replace the command
anova(fit2, fit1, test=”F”)
by
anova(fit2, fit1, test=”Chisq”)
since
φ
is
a known constant (1) in the binomial.
Note: as part of this question I could have given you tables and asked you also to perform the test you
suggested above by hand, based on the R results presented earlier in this question i.e., write down the
corresponding appropriate test statistic and its approximate distribution under the null hypothesis, state
your decision rule if testing at
↵
= 0
.
01, calculate the observed value of this test statistic, and state your
conclusion. You must be able to use standard normal, t, chi-squared or F distribution tables to find p-values
if asked, and recognize which is the correct table to use.
7
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