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Causal Inference
June 23 2019
Contents
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OVERVIEW. G-FORMULA AND INVERSE PROBABILITY WEIGHTING
- MIGUEL HERNAN
MARGINAL STRUCTURAL MODELS AND G-ESTIMATION OF
STRUCTURAL NESTED MODELS
- JUDITH LOK
SINGLE WORLD INTERVENTION GRAPHS AND OTHER RECENT
DEVELOPMENTS IN CAUSAL INFERENCE
- JAMES ROBINS
CAUSAL MEDIATION ANALYSIS
- TYLER VANDERWEELE
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5
CAUSAL METHODS TO TAME UNMEASURED CONFOUDING
- ERIC TCHETGEN TCHETGEN
OVERVIEW. G-FORMULA AND INVERSE PROBABILITY WEIGHTING
- MIGUEL HERNAN
Terminology
4
โ€ข Upper-case letters (e.g. A, Y): random variables
โ€ข Lower-case letters (e.g. a, y): possible values of
random variables (i.e. fixed to individual)
โ€ข Potential outcomes = counterfactual outcomes:
the situation would have been observed under A=a
โ€ข Consistency: If ๐ด๐‘– = ๐‘Ž, then ๐‘Œ๐‘–
๐‘Ž
= ๐‘Œ๐‘–
๐ด
= ๐‘Œ๐‘– (same as Rubinโ€™s
โ€˜stable-unit-treatment-value assumption(SUTVA)โ€™)
โ€ข ๐‘ท๐’“[๐’€๐’‚=๐Ÿ = ๐Ÿ] : proportion of indivi. Y=1, had everybody
been treated <- unconditional probability
โ€ข ๐‘ท๐’“ ๐’€ = ๐Ÿ ๐‘จ = ๐Ÿ] : proportion of indivi. Y=1 among who
received treatment <- conditional probability
Association and Causation
5
โ€ข Fundamental problem of causal inference
โ€“ Individual causal effects cannot be determined (= missing data
problem)
โ€ข Average causal effects of A on Y in the population exist if
๐‘ท๐’“ ๐’€๐’‚=๐Ÿ = ๐Ÿ โ‰  ๐‘ท๐’“ ๐’€๐’‚=๐ŸŽ = ๐Ÿ
โ€ข Association between A and Y in the population exist if
๐‘ท๐’“ ๐’€ = ๐Ÿ | ๐‘จ = ๐Ÿ โ‰  ๐‘ท๐’“ ๐’€ = ๐Ÿ | ๐‘จ = ๐ŸŽ
โ€“ If there is no association, they are independent ๐ดโˆ๐‘Œ
โ€ข If outcome is nondichotomous, ๐„ ๐’€๐’‚=๐Ÿ (population mean or
expectation) can be substituted
โ€ข There is confounding when ๐‘ท๐’“ ๐’€๐’‚
= ๐Ÿ โ‰  ๐‘ท๐’“ ๐’€ = ๐Ÿ | ๐‘จ = ๐’‚
Definition of causal effects
6
Conditions for causal inference
7
โ€ข Ideal randomized experiment
โ€“ No loss to follow-up
โ€“ Full compliance with assigned treatment
โ€“ One version of treatment (well-defined treatment)
โ€“ Double blind assigment (neither subjects nor investigators know)
1. Exchangeability <- marginal randomization
โ€“ ๐‘ท๐’“ ๐’€๐’‚
= ๐Ÿ ๐‘จ = ๐Ÿ] = ๐‘ท๐’“ ๐’€๐’‚
= ๐Ÿ ๐‘จ = ๐ŸŽ] โŸบ ๐‘จโˆ๐’€๐’‚
๐’‡๐’๐’“ ๐’‚๐’๐’ ๐’‚ (โ‰  ๐‘จโˆ๐’€)
โ€“ Lack of confounding
โ€“ If not holds, we need counfouding adjustment
2. Positivity (explained later)
โ€“ No treatment that no one take
3. Consistency (explained later)
โ€“ SUTVA
Case study 1
8
Exchangeabilityโ€ฆ
9
โ€ข Holds in mariginally randomized experiments => no need
of confounding adjustment : association is causation
โ€ข Nonparametric estimation with saturated linear model
๐ธ ๐‘Œ ๐ด = ๐œƒ0 + ๐œƒ1๐ด
โ€“ If not treated, i.e. A=0, ๐ธ ๐‘Œ ๐ด = 0 = ๐œƒ0 + ๐œƒ1 ร— 0 = ๐œƒ0
โ€“ If treated, i.e. A=1, ๐ธ ๐‘Œ ๐ด = 1 = ๐œƒ0 + ๐œƒ1 ร— 1 = ๐œƒ0 + ๐œƒ1
โ€“ Then, average effects estimate is ๐œƒ0 + ๐œƒ1 โˆ’ ๐œƒ0 = ๐œƒ1 (achievable
nonparametrically)
โ€ข Not hold in conditionally randomized experiments,
observational study => need of confounding adjustment
โ€ข What if randomized conditioning on L?
โ€“ Need to estimate ๐ธ[๐‘Œ๐‘Ž=1
] and ๐ธ[๐‘Œ๐‘Ž=0
], i.e. The standardized mean in
the treated and in the untreated
Standardization
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๐ธ ๐‘Œ๐‘Ž=1
= E ๐‘Œ๐‘Ž=1
๐ฟ = 1 ร— Pr ๐ฟ = 1 + E ๐‘Œ๐‘Ž=1
๐ฟ = 0 ร— Pr ๐ฟ = 0
= E ๐‘Œ ๐ฟ = 1, ๐ด = 1 ร— Pr ๐ฟ = 1 + E ๐‘Œ ๐ฟ = 0, ๐ด = 1 ร— Pr ๐ฟ = 0
= เท
๐‘™=1,0
๐ธ[๐‘Œ|๐ฟ = ๐‘™, ๐ด = 1] ร— Pr[๐ฟ = ๐‘™]
๐ธ ๐‘Œ๐‘Ž=0
= เท
๐‘™=1,0
๐ธ[๐‘Œ|๐ฟ = ๐‘™, ๐ด = 0] ร— Pr[๐ฟ = ๐‘™]
Exchangeability
โ€ข Then, we can estimate the average causal effect
โ€ข Without model (refer above)
โ€ข With model (bias-variance trade-off)
โ€“ Nonparametric estimation = saturated linear model ๐ธ ๐‘Œ ๐ด, ๐ฟ = ๐œƒ0 +
๐œƒ1๐ด + ๐œƒ2๐ฟ + ๐œƒ1๐ดL
: allow difference in treatment effect between L
: the curse of dimensionality
โ€“ Parametric estimation = nonsaturated linear model ๐ธ ๐‘Œ ๐ด, ๐ฟ = ๐œƒ0 +
๐œƒ1๐ด + ๐œƒ2๐ฟ
: restriction that treatment effect is the same
: variance become larger
Inverse probability(IP)
weighting
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โ€ข IP weighting is anther methods to gain the average causal
effects under conditional exchangeability, i.e. adjustment
The goal is to make the pseudo-population with weighting
The way of IP weighting and
interpretation
12
โ€ข IP weights: ๐‘Š๐ด =
1
๐‘“(๐ด|๐ฟ)
โ€“ ๐‘“(๐‘Ž) is the probability density function (pdf) of the random
variable A evaluated at the value a
โ€ข Stabilized IP weights: ๐‘†๐‘Š๐ด =
๐‘“(๐ด)
๐‘“(๐ด|๐ฟ)
โ€“ get the same size of pseudo-population as the original one
โ€“ Lead to smaller variance (by avoiding weighting too much on
small number of people)
โ€ข Generalized IP weights: ๐บ๐‘Š๐ด =
๐‘”(๐ด)
๐‘“(๐ด|๐ฟ)
Violations of positivity
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โ€ข Structural
โ€“ No causal inferences for subsets w/ structural non-positivity
โ€“ Causal inference by restricting the study population
โ€ข Random
โ€“ Causal inference with parametric models to smooth over the
subsets w/ non-positivity
โ€ข โ€ฆSo,
โ€ข Standardization vs IP weighting ?
โ€“ In nonparametric estimate, same outcome is acquired
โ€“ In parametric estimate, the outcome is different
โ€“ Recommend doubly-robust methods
Suppose we want to estimate
the causal effect of A on Yโ€ฆ
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โ€ข If everybody had been treated: ๐ธ[๐‘Œ๐‘Ž=1]
โ€ข If everybody had been untreated: ๐ธ[๐‘Œ๐‘Ž=0
]
โ€ข Then, average causal effect: ๐ธ[๐‘Œ๐‘Ž=1
] - ๐ธ[๐‘Œ๐‘Ž=0
]
โ€ข Weighted regression model ๐ธ ๐‘Œ ๐ด = ๐œƒ0 + ๐œƒ1๐ด
โ€“ Associational model
โ€“ The difference, i.e. ๐œƒ1 would have a causal interpretation as
๐ธ[๐‘Œ๐‘Ž=1
] - ๐ธ[๐‘Œ๐‘Ž=0
] when all confounders are included in
calculation (e.g. Estimate ini the pseudo-population)
โ€ข Marginal Structural Model (MSM) ๐ธ[๐‘Œ๐‘Ž] = ๐›ฝ0 + ๐›ฝ1๐‘Ž
โ€“ Causal model
โ€“ ๐œƒ1 = ๐›ฝ1 if ๐œƒ1 would have a causal interpretation
Marginal structural model
(MSM)
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โ€ข Structural?
โ€“ Structural = causal
โ€“ The outcome variable is counterfactual
โ€“ i.e. parameters for treatment in MSM have direct causal interpretation
โ€ข Marginal?
โ€“ Marginal = unconditional
โ€“ No need to include the confounders as covariates in the model
โ€“ i.e. effect may be estimated in the entire population
โ€“ If include covariates, allow to estimate conditional effect
โ€ข Again, recommend doubly-robust estimators
Advantage of MSM with IP
weighting or standardization
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โ€ข IP weighting and standardization are able to control
time-varying treatment and confounders
โ€“ Can handle treatment-confounder feedback
โ€ข Outcome regression and propensity score methods
introduce bias if treatments and confounders are time-
variant
โ€“ Can not handle treatment-confounder feedback
MARGINAL STRUCTURAL MODELS AND G-ESTIMATION OF
STRUCTURAL NESTED MODELS
- JUDITH LOK
Case study 2
18
What is the causal effect of AZT on mortality?
โ€“ AZT (Zidovudine, Retrovir) : anti-HIV drug
โ€“ PCP : Pneumocystis pneumonia
โ€“ Prophylaxis : anti-HIV drug
Taking account of the
treatment regime
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โ€ข Treatment Regime is
โ€“ AZT was followed by โ€œno prophylaxisโ€ if no PCP
โ€“ AZT was followed by โ€œprophylaxisโ€ if PCP
โ€ข Intention-to-treat assessment?
โ€ข Conditioning on PCP (might lead to selection bias)?
โ€ข Also, positivity violation?
โ€ข Conditioning on prophylaxis?
-> important to talk with subject-matter experts
MSM conditioning on past
treatment
20
โ€ข Under the assumption that
โ€“ Independent, identically distributed full data (i.i.d.)
โ€“ No unmeasured confounding
โ€“ Missing At Random(MAR) : censoring depend on past observed
characteristics but not on forther prognosis
โ€“ Positivity
โ€ข MSM investigate the effect of โ€œstaticโ€ treatment regimes
โ€“ Meaning treatment would not be patient-specific or be affected by
previous outcomes
โ€“ IP was the probability of receiving actual treatment for each patient,
i.e. ๐‘ƒ(๐ด๐‘˜ = ๐‘Ž๐‘˜|๐ฟ๐‘˜, ๐ด๐‘˜โˆ’1)
How to model multistate?
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โ€ข Problem is
โ€“ Computationally involved
โ€“ Necessity to model each transition given the past
โ€“ No specific parameter to indicate whether treatment affects the
outcome of interest -> no standard test for treatment effect
๏ƒž Structural Nested Mean Model and Structural Failure Time
Models
โ€“ To estimate the effect of treatment on the final outcome
Structural Nested Mean Model
(SNMM)
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โ€ข Assumptions
โ€“ No unmeasured confounding
โ€“ Consistency
โ€ข Treatment effects, or difference bw observed outcomes and
counterfactual is defined as,
โ€“ ๐›พ๐‘˜
เดฅ
๐‘™๐‘˜, ๐‘Ž๐‘˜ = ๐ธ[๐‘Œ ๐‘Ž๐‘˜,เดฅ
0
โˆ’ ๐‘Œ ๐‘Ž๐‘˜โˆ’1,เดฅ
0
|๐ฟ๐‘˜ = เดฅ
๐‘™๐‘˜, ๐ด๐‘˜ = ๐‘Ž๐‘˜]
โ€“ The outcome had treatment stopped at k+1 versus at k
SINGLE WORLD INTERVENTION GRAPHS AND OTHER RECENT
DEVELOPMENTS IN CAUSAL INFERENCE
- JAMES ROBINS
Directed Acyclic Graphs
(DAGs)
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โ€ข Whose nodes (vertices) are random variables with directed
edges (arrows) and no directed cycles
โ€ข Parents of variables (e.g. ๐‘ƒ๐ด1 = ๐‘‰0)
โ€ข A path is closed if it contains a collider, otherwise path is
open
โ€ข Complete DAG
โ€“ There is an arrow between every pair of nodes
โ€“ ๐‘“ ๐‘ฃ = ๐‘“(๐‘ฃ3|๐‘ฃ1, ๐‘ฃ2)๐‘“(๐‘ฃ2|๐‘ฃ0)๐‘“(๐‘ฃ1|๐‘ฃ0)๐‘“(๐‘ฃ0)
โ€“ Nonparametric (saturated) model
โ€ข Incomplete DAG
โ€“ ๐‘“ ๐‘ฃ = ๐‘“(๐‘ฃ3|๐‘ฃ0, ๐‘ฃ1, ๐‘ฃ2)๐‘“(๐‘ฃ3|๐‘ฃ0, ๐‘ฃ1) ๐‘“(๐‘ฃ1|๐‘ฃ0)๐‘“(๐‘ฃ0)
d-separation and d-connected
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โ€ข D-separation
โ€“ When no open path between two variables along which
probability can flow, we call two variables are d-separated
โ€“ Otherwise, we call they are d-connected
โ€“ We also think d-separation and d-connected with
condition
โ€ข If two sets of nodes are d-separated, they will be
independent in every distribution in DAG (soundness)
โ€ข If two sets of nodes are not d-separated, there will be some
distribution that they are not independent in DAG
(completeness)
Causal DAGs
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1. Lack of arrows = the absence of direct causal effects
2. Any variables are causes of all its descendants (vise versa)
3. All common causes must be on the graph even if they are
not measured
4. Causal Markov Assumption (CMA) is hold: the causal DAG
= a statistical DAG = distribution of factors
5. CMA = conditional on its direct causes, a variable is
independent of any variable it does not cause
โ€“ d-separation implies statistical independence
โ€“ d-connection does not imply statistical dependence (but generally we
assume dependence)
Single-World Intervention
Graphs (SWIGs)
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โ€ข The way to represent counterfactuals on the graphs
โ€ข SWIG G(0) represents Pr ๐ด, ๐‘Œ๐‘Ž=0
โ€ข SWIG G(1) represents Pr ๐ด, ๐‘Œ๐‘Ž=1
โ€ข Since we cannot show ๐‘Œ๐‘Ž=0
and ๐‘Œ๐‘Ž=1
on the same SWIG,
the name Single-World Intervention Graphs is appropriate
SWIGs for dynamic regimes
28
โ€ข The treatment at time t is determined by ๐‘”๐‘ก
โ€ข Under the regime ๐‘” = (๐‘Ž0, ๐ฟ1)
โ€“ ๐ด0
+๐‘”
= ๐‘Ž0
โ€“ ๐ด1
+๐‘”
= ๐‘”1 ๐ฟ1
๐‘Ž0
= ๐ฟ1
๐‘Ž0
โ€ข For any regime g, static or dynamic, the g-
formula will identify the counterfactual
outcome if :
โ€“ ๐‘Œ๐‘”
โˆ๐ด0
โ€“ ๐‘Œ๐‘”
โˆ๐ด1|๐ฟ1, ๐ด0 = ๐‘Ž0
โ€ข And, the g-formula will have a causal
interpretation
โ€“ ๐ธ ๐‘Œ๐‘” ฯƒ๐‘™1
๐ธ[๐‘Œ|๐ด1 = ๐‘™1, ๐ฟ1 = ๐‘™1, ๐ด0 = ๐‘Ž0]Pr[๐ฟ1 = ๐‘™1|๐ด0 = ๐‘Ž0]
We do not consider the treatment A is d-co
CAUSAL MEDIATION ANALYSIS
- TYLER VANDERWEELE
Standard approach to
investigate mediation
30
1. Difference method
โ€“ Using the difference between the two coefficient
โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐ถ = ๐‘ = ๐œ™0 + ๐œ™1๐‘Ž + ๐œ™2๐‘
โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐‘€ = ๐‘š, ๐ถ = ๐‘ = ๐œƒ0 + ๐œƒ1๐‘Ž + ๐œƒ2๐‘š + ๐œƒ4๐‘
โ€“ Indirect effect = ๐œ™1 โˆ’ ๐œƒ1
โ€“ Direct effect = ๐œƒ1
2. Product method
โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐ถ = ๐‘ = ๐›ฝ0 + ๐›ฝ1๐‘Ž + ๐›ฝ2๐‘
โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐‘€ = ๐‘š, ๐ถ = ๐‘ = ๐œƒ0 + ๐œƒ1๐‘Ž + ๐œƒ2๐‘š + ๐œƒ4๐‘
โ€“ Indirect effect = ๐›ฝ1๐œƒ1
โ€“ Direct effect = ๐œƒ1
โ€ข Product method and difference method
โ€“ coincide for continuous outcomes
โ€“ Will not coincide for binary outcomes
Limitation1: Mediator-
outcome confounding
31
โ€ข Just as unmeasured exposure-outcome confounders can
generate confounding bias of estimates of overall effects,
mediator-outcome confounders can generate bias of
estimates of direct and indirect effects
โ€ข Meaning, we might get paradoxical result!
โ€ข Approach 1) pay attention to mediator-outcome
confounding variables even during study design stage
โ€ข Approach 2) conduct sensitivity analysis
Limitation2:exposure-
mediator interactions
32
โ€ข Even if we include an interaction term, often analysis goes:
โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐ถ = ๐‘ = ๐œ™0 + ๐œ™1๐‘Ž + ๐œ™2๐‘
โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐‘€ = ๐‘š, ๐ถ = ๐‘ = ๐œƒ0 + ๐œƒ1๐‘Ž + ๐œƒ2๐‘š + ๐œƒ3๐‘Ž๐‘š + ๐œƒ4๐‘
โ€“ Indirect effect = ๐œ™1 โˆ’ ๐œƒ1
โ€“ Direct effect = ๐œƒ1
โ€ข Approach 1) consider the causal definitions f direct and
indirect effects for mediation analysis and required
unmeasured confounding assumptions
โ€ข Approach 2) describe the regression methods which can
be used in accord with the above definition
โ€ข Approach 3) provide sensitivity analysis techniques to
assess the possible violations to unmeasured confounding
assumptions
Approach 1) Definitions
33
โ€ข Controlled direct effect:
๐ถ๐ท๐ธ|๐‘š = ๐‘Œ ๐ด = 1 ๐‘€ = ๐‘š โˆ’ ๐‘Œ(๐ด = 0|๐‘€ = ๐‘š)
๐ธ ๐ถ๐ท๐ธ ๐‘š = ๐ธ ๐‘Œ ๐ด = 1, ๐‘š โˆ’ ๐ธ[๐‘Œ|๐ด = 0, ๐‘š]
โ€ข Natural direct effect:
๐‘๐ท๐ธ = ๐‘Œ ๐ด = 1 ๐‘€ = ๐‘€0 โˆ’ ๐‘Œ(๐ด = 0|๐‘€ = ๐‘€0)
๐ธ ๐‘๐ท๐ธ = เท
๐‘š
๐ธ ๐‘Œ ๐ด = 1, ๐‘š โˆ’ ๐ธ ๐‘Œ ๐ด = 0, ๐‘š Pr(๐‘€ = ๐‘š|๐ด = 0)
โ€ข Natural indirect effect:
๐‘๐ผ๐ธ|๐‘š = ๐‘Œ ๐‘€ = ๐‘€1 ๐ด = 1 โˆ’ ๐‘Œ ๐‘€ = ๐‘€0 ๐ด = 1
๐ธ ๐‘๐ผ๐ธ = เท
๐‘š
๐ธ ๐‘Œ ๐ด = 1, ๐‘š {Pr ๐‘€ = ๐‘š ๐ด = 1 โˆ’ Pr ๐‘€ = ๐‘š ๐ด = 0 }
โ€ข Total effect:
๐‘Œ1 โˆ’ ๐‘Œ0 = ๐‘๐ผ๐ธ + ๐‘๐ท๐ธ
โ€ข No presuppose that no interactions between the exposure
and mediator
Approach 1) no unmeasured
confounder assumption
34
1. No unmeasured exposure-outcome confounders given C
2. No unmeasured mediator-outcome confounders given
(C,A)
3. No unmeasured exposure-mediator confounders given C
4. No unmeasured mediator-outcome confounder affected by
exposure
Approach 2) Regression model
for causal mediation analysis
35
โ€ข Similar concepts apply to treatment levels A=a to A=a*,
then get the expression of regression
โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐‘€ = ๐‘š, ๐ถ = ๐‘ = ๐œƒ0 + ๐œƒ1๐‘Ž + ๐œƒ2๐‘š + ๐œƒ3๐‘Ž๐‘š + ๐œƒ4๐‘
โ€“ ๐ธ ๐‘€ ๐ด = ๐‘Ž, ๐ถ = ๐‘ = ๐›ฝ0 + ๐›ฝ1๐‘Ž + ๐›ฝ2๐‘
โ€“ ๐ถ๐ท๐ธ = ๐œƒ1 + ๐œƒ3๐‘š ๐‘Ž โˆ’ ๐‘Ž โˆ—
โ€“ ๐‘๐ท๐ธ = ๐œƒ1 + ๐œƒ3 ๐›ฝ0 + ๐›ฝ1๐‘Ž + ๐›ฝ2๐ธ ๐ถ ๐‘Ž โˆ’ ๐‘Ž โˆ—
โ€“ ๐‘๐ผ๐ธ = ๐œƒ2๐›ฝ1 + ๐œƒ3๐›ฝ1๐‘Ž ๐‘Ž โˆ’ ๐‘Ž โˆ—
โ€ข SE can be obtained using the delta
โ€ข Proportion mediated is the indirect effect divided by the total
effect (SAS, STATA and SPSS can do automatically for continuous,
binary, count, and time-to-event outcomes
Approach 2) cautions for
binary outcomes
36
โ€ข Difference method for a dichotomous outcomes and logistic
regression will give valid estimates, provided
โ€“ Model without the interaction is correctly specified
โ€“ No unmeasured confounding assumptions are satisfied
โ€“ Outcome is rare (can be relaxed by using log-linear)
โ€ข With common outcome, the difference method fails with
logistic regression due to non-collapsibility
โ€ข Monte Carlo approach, a simulation-based approach give
more flexibility
Approach 3) sensitivity
analysis
37
โ€ข In order to examine the extent to which the unmeasured
confounder would have to affect both the mediator and the
outcome to invalidate conclusions about NDE and NIE
โ€ข With an observed NDE or NIE of RR, we have unmeasured
confounder if ๐‘…๐‘…๐‘ˆ๐‘Œ and ๐‘…๐‘…๐ด๐‘ˆ|๐‘€ are greater than:
โ€“ ๐ธ โˆ’ ๐‘ฃ๐‘Ž๐‘™๐‘ข๐‘’ = ๐‘…๐‘… + ๐‘ ๐‘ž๐‘Ÿ๐‘ก[๐‘…๐‘… ร— ๐‘…๐‘… โˆ’ 1 ]
โ€“ ๐‘…๐‘…๐‘ˆ๐‘‡|๐ด = 1, ๐‘š = max
max Pr(๐‘Œ=1|๐ด=1,๐‘š)
min Pr(๐‘Œ=1|๐ด=1,๐‘š)
: the max effect among exposed of U
on Y, not through M
โ€“ ๐‘…๐‘…๐ด๐‘ˆ|๐‘š = ๐‘š๐‘Ž๐‘ฅ
Pr(๐‘ข|๐ด=1,๐‘š)
Pr(๐‘ข|๐ด=0,๐‘š)
: smaller in magnitude on the RR scale than
magnitude of max effect U on M across strata of A
โ€“ We can apply this in a routine manner to both the estimate and the
confidence interval limit closest to the null
Surrogate paradox
38
โ€ข โ€œsurrogate paradoxโ€ is manifest if
โ€“ The surrogate and outcome are strongly positively correlated
โ€“ The treatment has a positive effect on the surrogate
โ€“ The treatment has a negative effect on the outcome
โ€ข Might happen if
โ€“ E[Y|a,s,u] is NOT non-decreasing in a, i.e. a negative direct effect of A
on Y, OR
โ€“ E[Y|a,su] is NOT non-decreasing in s, i.e. the positive correlation of S
and Y is not because of the actual effect but because of confounding,
OR
โ€“ P(S>s|a,u) is NOT non-decreasing in a, i.e. transitivity fails; A affects
S for different people than S affects Y
Unification of Mediation and
Interaction
39
โ€ข Assess mediation in the presence of interaction to get direct
and indirect effects
โ€ข Under the composition assumption that ๐‘Œ๐‘Ž = ๐‘Œ๐‘Ž๐‘€๐‘Ž, total
effects can be decomposed into four components
โ€“ ๐‘Œ1 โˆ’ ๐‘Œ0 = ๐‘Œ10 โˆ’ ๐‘Œ00 + ๐‘Œ11 โˆ’ ๐‘Œ10 โˆ’ ๐‘Œ01 + ๐‘Œ00 ๐‘€0 + ๐‘Œ11 โˆ’ ๐‘Œ10 โˆ’ ๐‘Œ01 + ๐‘Œ00 (
)
๐‘€1 โˆ’
๐‘€0 + ๐‘Œ10 โˆ’ ๐‘Œ00 ๐‘€1 โˆ’ ๐‘€0
โ€“ CDE : effect of A in the absence of M
โ€“ INTref : interaction that operates only if the mediator is present in the
absence of exposure
โ€“ INTmed : interaction that operates only if the exposure changes the
mediator
โ€“ PIE : effect of the mediator in the absence of the exposure times the
effect of the exposure on the mediator
CAUSAL METHODS TO TAME UNMEASURED CONFOUDING
- ERIC TCHETGEN TCHETGEN
Instrumental variable (IV)
41
โ€ข IV approach refers to a particular set of methods that allow
one to recover a causal effect of an exposure in the
presence of unmeasured confounding
โ€ข Key assumption : one has observed a pre-exposure
unconfounded IV, which affects the outcome only through
its effects on the exposure
๐‘Œโˆ๐‘|๐‘ˆ, ๐ด
โ€ข Mendelian randomization is also kind of instrumental
variable approach
Formal definition of IV
42
โ€ข Assumption 1) Z and A are associated, Z has a causal
effect on A, or Z and A share common causes
โ€ข Assumption 2) Z affects the outcome Y only through A, i.e.
no direct effect of Z on Y (exclusion restriction)
โ€ข Assumption 3) Z does not share common causes with the
outcome Y, i.e. no confounding for the effect of Z on Y
โ€ข Assumption 4) Monotonicity : there are no defiers, that is,
there is only never takers (๐ด0 = 0, ๐ด1 = 0), always takers
(๐ด0 = 1, ๐ด1 = 1), compliers (๐ด0 = 0, ๐ด1 = 1), but defiers (๐ด0 =
1, ๐ด1 = 0),
Complier average causal
effect(CACE)
43
โ€ข The causal effect for individuals who would adhere to their
assignment
โ€ข OR, the effect for individuals for whom treatment is
manipulable
โ€ข Instrumental variable estimand ๐›ฝ๐ด =
๐›ฝ๐‘
๐›ผ๐‘
=
๐‘๐‘Ž๐‘ข๐‘ ๐‘Ž๐‘™ ๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก ๐‘œ๐‘“ ๐‘ ๐‘œ๐‘› ๐‘Œ
๐‘๐‘Ž๐‘ข๐‘ ๐‘Ž๐‘™ ๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก ๐‘œ๐‘“ ๐‘ ๐‘œ๐‘› ๐ด
โ€ข Wald estimand
โ€“
๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก ๐‘œ๐‘“ ๐‘Ÿ๐‘Ž๐‘›๐‘‘๐‘œ๐‘š๐‘–๐‘ง๐‘Ž๐‘ก๐‘–๐‘œ๐‘› ๐‘œ๐‘› ๐‘Œ=๐ผ๐‘‡๐‘‡ ๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก
๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก ๐‘œ๐‘“ ๐‘Ÿ๐‘Ž๐‘›๐‘‘๐‘œ๐‘š๐‘–๐‘ง๐‘Ž๐‘ก๐‘–๐‘œ๐‘› ๐‘œ๐‘› ๐‘๐‘œ๐‘š๐‘๐‘™๐‘–๐‘Ž๐‘›๐‘๐‘’
=
๐ธ ๐‘Œ ๐‘ = 1 โˆ’๐ธ(๐‘Œ|๐‘=0)
Pr ๐ด = 1 ๐‘ = 1 โˆ’Pr(๐ด=1|๐‘=0)
โ€ข CACE
โ€“ ๐ถ๐ด๐ถ๐ธ = ๐ธ ๐‘Œ1 โˆ’ ๐‘Œ0 ๐ด1 > ๐ด0 =
๐ธ ๐‘Œ ๐‘ = 1 โˆ’๐ธ(๐‘Œ|๐‘=0)
Pr ๐ด = 1 ๐‘ = 1 โˆ’Pr(๐ด=1|๐‘=0)
โ€“ However, both counterfactuals are never observed for a person, thus
compliers are not identified
Effect of treatment on the
treated (ETT)
44
โ€ข Alternative assumption 4) no current treatment value
interaction
โ€ข The advantage is that it does not require the monotonicity
assumption, BUT requires ruling out the possibility of effect
heterogeneity of the effect of A in the treated
โ€ข ๐ธ๐‘‡๐‘‡ =
๐ธ ๐‘Œ ๐‘ = 1 โˆ’๐ธ(๐‘Œ|๐‘=0)
Pr ๐ด = 1 ๐‘ = 1 โˆ’Pr(๐ด=1|๐‘=0)
= ๐ธ ๐‘Œ1 โˆ’ ๐‘Œ0 ๐ด = 1
Average Causal Effect (ACE)
45
โ€ข Required extra assumption 5) homogeneity assumption
โ€ข ๐ด๐ถ๐ธ = ๐ธ ๐‘Œ๐‘Ž=1 โˆ’ ๐‘Œ๐‘Ž=0 =
๐ธ ๐‘Œ ๐‘ = 1 โˆ’๐ธ(๐‘Œ|๐‘=0)
Pr ๐ด = 1 ๐‘ = 1 โˆ’Pr(๐ด=1|๐‘=0)
Covariates
46
โ€ข In the IV approach, we must account for covariates to
โ€“ Account for confounding of the effects of Z on Y, and preventing a
violation of the exclusion restriction by C
โ€“ Partially account for confounding of the effects of A on Y
โ€“ Explain variation in the outcome Y to improve efficiency
Two stage least square (2SLS)
47
โ€ข Another methods to estimate the causal effect instead of IV
estimand or wald estimand
โ€ข Stage 1: fit a linear regression of A on Z and C, and
compute the predicted value
แˆ˜
๐ด = เท 
๐ธ ๐ด ๐‘, ๐ถ = เทž
๐›ผ0 + เทž
๐›ผ1๐‘ + เทž
๐›ผ2๐ถ
โ€ข Stage 2:fit a linear regression of Y on predicted A and C
๐ธ ๐‘Œ แˆ˜
๐ด, ๐ถ = ๐œ‡0 + ๐œ‡1
แˆ˜
๐ด + ๐œ‡2๐ถ
Reference
1
2
Hernรกn MA, Robins JM (2019). Causal Inference. Boca Raton:
Chapman & Hall/CRC, forthcoming.
https://www.hsph.harvard.edu/miguel-hernan/causal-inference-
book/
VanderWeele, T. (2015). Explanation in causal inference: methods
for mediation and interaction. Oxford University Press.
https://www.amazon.com/Explanation-Causal-Inference-
Mediation-Interaction/dp/0199325871
48
Thank you for your attention!

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Causal Inference Methods and Recent Developments

  • 2. Contents 1 2 3 4 OVERVIEW. G-FORMULA AND INVERSE PROBABILITY WEIGHTING - MIGUEL HERNAN MARGINAL STRUCTURAL MODELS AND G-ESTIMATION OF STRUCTURAL NESTED MODELS - JUDITH LOK SINGLE WORLD INTERVENTION GRAPHS AND OTHER RECENT DEVELOPMENTS IN CAUSAL INFERENCE - JAMES ROBINS CAUSAL MEDIATION ANALYSIS - TYLER VANDERWEELE 2 5 CAUSAL METHODS TO TAME UNMEASURED CONFOUDING - ERIC TCHETGEN TCHETGEN
  • 3. OVERVIEW. G-FORMULA AND INVERSE PROBABILITY WEIGHTING - MIGUEL HERNAN
  • 4. Terminology 4 โ€ข Upper-case letters (e.g. A, Y): random variables โ€ข Lower-case letters (e.g. a, y): possible values of random variables (i.e. fixed to individual) โ€ข Potential outcomes = counterfactual outcomes: the situation would have been observed under A=a โ€ข Consistency: If ๐ด๐‘– = ๐‘Ž, then ๐‘Œ๐‘– ๐‘Ž = ๐‘Œ๐‘– ๐ด = ๐‘Œ๐‘– (same as Rubinโ€™s โ€˜stable-unit-treatment-value assumption(SUTVA)โ€™) โ€ข ๐‘ท๐’“[๐’€๐’‚=๐Ÿ = ๐Ÿ] : proportion of indivi. Y=1, had everybody been treated <- unconditional probability โ€ข ๐‘ท๐’“ ๐’€ = ๐Ÿ ๐‘จ = ๐Ÿ] : proportion of indivi. Y=1 among who received treatment <- conditional probability
  • 5. Association and Causation 5 โ€ข Fundamental problem of causal inference โ€“ Individual causal effects cannot be determined (= missing data problem) โ€ข Average causal effects of A on Y in the population exist if ๐‘ท๐’“ ๐’€๐’‚=๐Ÿ = ๐Ÿ โ‰  ๐‘ท๐’“ ๐’€๐’‚=๐ŸŽ = ๐Ÿ โ€ข Association between A and Y in the population exist if ๐‘ท๐’“ ๐’€ = ๐Ÿ | ๐‘จ = ๐Ÿ โ‰  ๐‘ท๐’“ ๐’€ = ๐Ÿ | ๐‘จ = ๐ŸŽ โ€“ If there is no association, they are independent ๐ดโˆ๐‘Œ โ€ข If outcome is nondichotomous, ๐„ ๐’€๐’‚=๐Ÿ (population mean or expectation) can be substituted โ€ข There is confounding when ๐‘ท๐’“ ๐’€๐’‚ = ๐Ÿ โ‰  ๐‘ท๐’“ ๐’€ = ๐Ÿ | ๐‘จ = ๐’‚
  • 7. Conditions for causal inference 7 โ€ข Ideal randomized experiment โ€“ No loss to follow-up โ€“ Full compliance with assigned treatment โ€“ One version of treatment (well-defined treatment) โ€“ Double blind assigment (neither subjects nor investigators know) 1. Exchangeability <- marginal randomization โ€“ ๐‘ท๐’“ ๐’€๐’‚ = ๐Ÿ ๐‘จ = ๐Ÿ] = ๐‘ท๐’“ ๐’€๐’‚ = ๐Ÿ ๐‘จ = ๐ŸŽ] โŸบ ๐‘จโˆ๐’€๐’‚ ๐’‡๐’๐’“ ๐’‚๐’๐’ ๐’‚ (โ‰  ๐‘จโˆ๐’€) โ€“ Lack of confounding โ€“ If not holds, we need counfouding adjustment 2. Positivity (explained later) โ€“ No treatment that no one take 3. Consistency (explained later) โ€“ SUTVA
  • 9. Exchangeabilityโ€ฆ 9 โ€ข Holds in mariginally randomized experiments => no need of confounding adjustment : association is causation โ€ข Nonparametric estimation with saturated linear model ๐ธ ๐‘Œ ๐ด = ๐œƒ0 + ๐œƒ1๐ด โ€“ If not treated, i.e. A=0, ๐ธ ๐‘Œ ๐ด = 0 = ๐œƒ0 + ๐œƒ1 ร— 0 = ๐œƒ0 โ€“ If treated, i.e. A=1, ๐ธ ๐‘Œ ๐ด = 1 = ๐œƒ0 + ๐œƒ1 ร— 1 = ๐œƒ0 + ๐œƒ1 โ€“ Then, average effects estimate is ๐œƒ0 + ๐œƒ1 โˆ’ ๐œƒ0 = ๐œƒ1 (achievable nonparametrically) โ€ข Not hold in conditionally randomized experiments, observational study => need of confounding adjustment โ€ข What if randomized conditioning on L? โ€“ Need to estimate ๐ธ[๐‘Œ๐‘Ž=1 ] and ๐ธ[๐‘Œ๐‘Ž=0 ], i.e. The standardized mean in the treated and in the untreated
  • 10. Standardization 10 ๐ธ ๐‘Œ๐‘Ž=1 = E ๐‘Œ๐‘Ž=1 ๐ฟ = 1 ร— Pr ๐ฟ = 1 + E ๐‘Œ๐‘Ž=1 ๐ฟ = 0 ร— Pr ๐ฟ = 0 = E ๐‘Œ ๐ฟ = 1, ๐ด = 1 ร— Pr ๐ฟ = 1 + E ๐‘Œ ๐ฟ = 0, ๐ด = 1 ร— Pr ๐ฟ = 0 = เท ๐‘™=1,0 ๐ธ[๐‘Œ|๐ฟ = ๐‘™, ๐ด = 1] ร— Pr[๐ฟ = ๐‘™] ๐ธ ๐‘Œ๐‘Ž=0 = เท ๐‘™=1,0 ๐ธ[๐‘Œ|๐ฟ = ๐‘™, ๐ด = 0] ร— Pr[๐ฟ = ๐‘™] Exchangeability โ€ข Then, we can estimate the average causal effect โ€ข Without model (refer above) โ€ข With model (bias-variance trade-off) โ€“ Nonparametric estimation = saturated linear model ๐ธ ๐‘Œ ๐ด, ๐ฟ = ๐œƒ0 + ๐œƒ1๐ด + ๐œƒ2๐ฟ + ๐œƒ1๐ดL : allow difference in treatment effect between L : the curse of dimensionality โ€“ Parametric estimation = nonsaturated linear model ๐ธ ๐‘Œ ๐ด, ๐ฟ = ๐œƒ0 + ๐œƒ1๐ด + ๐œƒ2๐ฟ : restriction that treatment effect is the same : variance become larger
  • 11. Inverse probability(IP) weighting 11 โ€ข IP weighting is anther methods to gain the average causal effects under conditional exchangeability, i.e. adjustment The goal is to make the pseudo-population with weighting
  • 12. The way of IP weighting and interpretation 12 โ€ข IP weights: ๐‘Š๐ด = 1 ๐‘“(๐ด|๐ฟ) โ€“ ๐‘“(๐‘Ž) is the probability density function (pdf) of the random variable A evaluated at the value a โ€ข Stabilized IP weights: ๐‘†๐‘Š๐ด = ๐‘“(๐ด) ๐‘“(๐ด|๐ฟ) โ€“ get the same size of pseudo-population as the original one โ€“ Lead to smaller variance (by avoiding weighting too much on small number of people) โ€ข Generalized IP weights: ๐บ๐‘Š๐ด = ๐‘”(๐ด) ๐‘“(๐ด|๐ฟ)
  • 13. Violations of positivity 13 โ€ข Structural โ€“ No causal inferences for subsets w/ structural non-positivity โ€“ Causal inference by restricting the study population โ€ข Random โ€“ Causal inference with parametric models to smooth over the subsets w/ non-positivity โ€ข โ€ฆSo, โ€ข Standardization vs IP weighting ? โ€“ In nonparametric estimate, same outcome is acquired โ€“ In parametric estimate, the outcome is different โ€“ Recommend doubly-robust methods
  • 14. Suppose we want to estimate the causal effect of A on Yโ€ฆ 14 โ€ข If everybody had been treated: ๐ธ[๐‘Œ๐‘Ž=1] โ€ข If everybody had been untreated: ๐ธ[๐‘Œ๐‘Ž=0 ] โ€ข Then, average causal effect: ๐ธ[๐‘Œ๐‘Ž=1 ] - ๐ธ[๐‘Œ๐‘Ž=0 ] โ€ข Weighted regression model ๐ธ ๐‘Œ ๐ด = ๐œƒ0 + ๐œƒ1๐ด โ€“ Associational model โ€“ The difference, i.e. ๐œƒ1 would have a causal interpretation as ๐ธ[๐‘Œ๐‘Ž=1 ] - ๐ธ[๐‘Œ๐‘Ž=0 ] when all confounders are included in calculation (e.g. Estimate ini the pseudo-population) โ€ข Marginal Structural Model (MSM) ๐ธ[๐‘Œ๐‘Ž] = ๐›ฝ0 + ๐›ฝ1๐‘Ž โ€“ Causal model โ€“ ๐œƒ1 = ๐›ฝ1 if ๐œƒ1 would have a causal interpretation
  • 15. Marginal structural model (MSM) 15 โ€ข Structural? โ€“ Structural = causal โ€“ The outcome variable is counterfactual โ€“ i.e. parameters for treatment in MSM have direct causal interpretation โ€ข Marginal? โ€“ Marginal = unconditional โ€“ No need to include the confounders as covariates in the model โ€“ i.e. effect may be estimated in the entire population โ€“ If include covariates, allow to estimate conditional effect โ€ข Again, recommend doubly-robust estimators
  • 16. Advantage of MSM with IP weighting or standardization 16 โ€ข IP weighting and standardization are able to control time-varying treatment and confounders โ€“ Can handle treatment-confounder feedback โ€ข Outcome regression and propensity score methods introduce bias if treatments and confounders are time- variant โ€“ Can not handle treatment-confounder feedback
  • 17. MARGINAL STRUCTURAL MODELS AND G-ESTIMATION OF STRUCTURAL NESTED MODELS - JUDITH LOK
  • 18. Case study 2 18 What is the causal effect of AZT on mortality? โ€“ AZT (Zidovudine, Retrovir) : anti-HIV drug โ€“ PCP : Pneumocystis pneumonia โ€“ Prophylaxis : anti-HIV drug
  • 19. Taking account of the treatment regime 19 โ€ข Treatment Regime is โ€“ AZT was followed by โ€œno prophylaxisโ€ if no PCP โ€“ AZT was followed by โ€œprophylaxisโ€ if PCP โ€ข Intention-to-treat assessment? โ€ข Conditioning on PCP (might lead to selection bias)? โ€ข Also, positivity violation? โ€ข Conditioning on prophylaxis? -> important to talk with subject-matter experts
  • 20. MSM conditioning on past treatment 20 โ€ข Under the assumption that โ€“ Independent, identically distributed full data (i.i.d.) โ€“ No unmeasured confounding โ€“ Missing At Random(MAR) : censoring depend on past observed characteristics but not on forther prognosis โ€“ Positivity โ€ข MSM investigate the effect of โ€œstaticโ€ treatment regimes โ€“ Meaning treatment would not be patient-specific or be affected by previous outcomes โ€“ IP was the probability of receiving actual treatment for each patient, i.e. ๐‘ƒ(๐ด๐‘˜ = ๐‘Ž๐‘˜|๐ฟ๐‘˜, ๐ด๐‘˜โˆ’1)
  • 21. How to model multistate? 21 โ€ข Problem is โ€“ Computationally involved โ€“ Necessity to model each transition given the past โ€“ No specific parameter to indicate whether treatment affects the outcome of interest -> no standard test for treatment effect ๏ƒž Structural Nested Mean Model and Structural Failure Time Models โ€“ To estimate the effect of treatment on the final outcome
  • 22. Structural Nested Mean Model (SNMM) 22 โ€ข Assumptions โ€“ No unmeasured confounding โ€“ Consistency โ€ข Treatment effects, or difference bw observed outcomes and counterfactual is defined as, โ€“ ๐›พ๐‘˜ เดฅ ๐‘™๐‘˜, ๐‘Ž๐‘˜ = ๐ธ[๐‘Œ ๐‘Ž๐‘˜,เดฅ 0 โˆ’ ๐‘Œ ๐‘Ž๐‘˜โˆ’1,เดฅ 0 |๐ฟ๐‘˜ = เดฅ ๐‘™๐‘˜, ๐ด๐‘˜ = ๐‘Ž๐‘˜] โ€“ The outcome had treatment stopped at k+1 versus at k
  • 23. SINGLE WORLD INTERVENTION GRAPHS AND OTHER RECENT DEVELOPMENTS IN CAUSAL INFERENCE - JAMES ROBINS
  • 24. Directed Acyclic Graphs (DAGs) 24 โ€ข Whose nodes (vertices) are random variables with directed edges (arrows) and no directed cycles โ€ข Parents of variables (e.g. ๐‘ƒ๐ด1 = ๐‘‰0) โ€ข A path is closed if it contains a collider, otherwise path is open โ€ข Complete DAG โ€“ There is an arrow between every pair of nodes โ€“ ๐‘“ ๐‘ฃ = ๐‘“(๐‘ฃ3|๐‘ฃ1, ๐‘ฃ2)๐‘“(๐‘ฃ2|๐‘ฃ0)๐‘“(๐‘ฃ1|๐‘ฃ0)๐‘“(๐‘ฃ0) โ€“ Nonparametric (saturated) model โ€ข Incomplete DAG โ€“ ๐‘“ ๐‘ฃ = ๐‘“(๐‘ฃ3|๐‘ฃ0, ๐‘ฃ1, ๐‘ฃ2)๐‘“(๐‘ฃ3|๐‘ฃ0, ๐‘ฃ1) ๐‘“(๐‘ฃ1|๐‘ฃ0)๐‘“(๐‘ฃ0)
  • 25. d-separation and d-connected 25 โ€ข D-separation โ€“ When no open path between two variables along which probability can flow, we call two variables are d-separated โ€“ Otherwise, we call they are d-connected โ€“ We also think d-separation and d-connected with condition โ€ข If two sets of nodes are d-separated, they will be independent in every distribution in DAG (soundness) โ€ข If two sets of nodes are not d-separated, there will be some distribution that they are not independent in DAG (completeness)
  • 26. Causal DAGs 26 1. Lack of arrows = the absence of direct causal effects 2. Any variables are causes of all its descendants (vise versa) 3. All common causes must be on the graph even if they are not measured 4. Causal Markov Assumption (CMA) is hold: the causal DAG = a statistical DAG = distribution of factors 5. CMA = conditional on its direct causes, a variable is independent of any variable it does not cause โ€“ d-separation implies statistical independence โ€“ d-connection does not imply statistical dependence (but generally we assume dependence)
  • 27. Single-World Intervention Graphs (SWIGs) 27 โ€ข The way to represent counterfactuals on the graphs โ€ข SWIG G(0) represents Pr ๐ด, ๐‘Œ๐‘Ž=0 โ€ข SWIG G(1) represents Pr ๐ด, ๐‘Œ๐‘Ž=1 โ€ข Since we cannot show ๐‘Œ๐‘Ž=0 and ๐‘Œ๐‘Ž=1 on the same SWIG, the name Single-World Intervention Graphs is appropriate
  • 28. SWIGs for dynamic regimes 28 โ€ข The treatment at time t is determined by ๐‘”๐‘ก โ€ข Under the regime ๐‘” = (๐‘Ž0, ๐ฟ1) โ€“ ๐ด0 +๐‘” = ๐‘Ž0 โ€“ ๐ด1 +๐‘” = ๐‘”1 ๐ฟ1 ๐‘Ž0 = ๐ฟ1 ๐‘Ž0 โ€ข For any regime g, static or dynamic, the g- formula will identify the counterfactual outcome if : โ€“ ๐‘Œ๐‘” โˆ๐ด0 โ€“ ๐‘Œ๐‘” โˆ๐ด1|๐ฟ1, ๐ด0 = ๐‘Ž0 โ€ข And, the g-formula will have a causal interpretation โ€“ ๐ธ ๐‘Œ๐‘” ฯƒ๐‘™1 ๐ธ[๐‘Œ|๐ด1 = ๐‘™1, ๐ฟ1 = ๐‘™1, ๐ด0 = ๐‘Ž0]Pr[๐ฟ1 = ๐‘™1|๐ด0 = ๐‘Ž0] We do not consider the treatment A is d-co
  • 29. CAUSAL MEDIATION ANALYSIS - TYLER VANDERWEELE
  • 30. Standard approach to investigate mediation 30 1. Difference method โ€“ Using the difference between the two coefficient โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐ถ = ๐‘ = ๐œ™0 + ๐œ™1๐‘Ž + ๐œ™2๐‘ โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐‘€ = ๐‘š, ๐ถ = ๐‘ = ๐œƒ0 + ๐œƒ1๐‘Ž + ๐œƒ2๐‘š + ๐œƒ4๐‘ โ€“ Indirect effect = ๐œ™1 โˆ’ ๐œƒ1 โ€“ Direct effect = ๐œƒ1 2. Product method โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐ถ = ๐‘ = ๐›ฝ0 + ๐›ฝ1๐‘Ž + ๐›ฝ2๐‘ โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐‘€ = ๐‘š, ๐ถ = ๐‘ = ๐œƒ0 + ๐œƒ1๐‘Ž + ๐œƒ2๐‘š + ๐œƒ4๐‘ โ€“ Indirect effect = ๐›ฝ1๐œƒ1 โ€“ Direct effect = ๐œƒ1 โ€ข Product method and difference method โ€“ coincide for continuous outcomes โ€“ Will not coincide for binary outcomes
  • 31. Limitation1: Mediator- outcome confounding 31 โ€ข Just as unmeasured exposure-outcome confounders can generate confounding bias of estimates of overall effects, mediator-outcome confounders can generate bias of estimates of direct and indirect effects โ€ข Meaning, we might get paradoxical result! โ€ข Approach 1) pay attention to mediator-outcome confounding variables even during study design stage โ€ข Approach 2) conduct sensitivity analysis
  • 32. Limitation2:exposure- mediator interactions 32 โ€ข Even if we include an interaction term, often analysis goes: โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐ถ = ๐‘ = ๐œ™0 + ๐œ™1๐‘Ž + ๐œ™2๐‘ โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐‘€ = ๐‘š, ๐ถ = ๐‘ = ๐œƒ0 + ๐œƒ1๐‘Ž + ๐œƒ2๐‘š + ๐œƒ3๐‘Ž๐‘š + ๐œƒ4๐‘ โ€“ Indirect effect = ๐œ™1 โˆ’ ๐œƒ1 โ€“ Direct effect = ๐œƒ1 โ€ข Approach 1) consider the causal definitions f direct and indirect effects for mediation analysis and required unmeasured confounding assumptions โ€ข Approach 2) describe the regression methods which can be used in accord with the above definition โ€ข Approach 3) provide sensitivity analysis techniques to assess the possible violations to unmeasured confounding assumptions
  • 33. Approach 1) Definitions 33 โ€ข Controlled direct effect: ๐ถ๐ท๐ธ|๐‘š = ๐‘Œ ๐ด = 1 ๐‘€ = ๐‘š โˆ’ ๐‘Œ(๐ด = 0|๐‘€ = ๐‘š) ๐ธ ๐ถ๐ท๐ธ ๐‘š = ๐ธ ๐‘Œ ๐ด = 1, ๐‘š โˆ’ ๐ธ[๐‘Œ|๐ด = 0, ๐‘š] โ€ข Natural direct effect: ๐‘๐ท๐ธ = ๐‘Œ ๐ด = 1 ๐‘€ = ๐‘€0 โˆ’ ๐‘Œ(๐ด = 0|๐‘€ = ๐‘€0) ๐ธ ๐‘๐ท๐ธ = เท ๐‘š ๐ธ ๐‘Œ ๐ด = 1, ๐‘š โˆ’ ๐ธ ๐‘Œ ๐ด = 0, ๐‘š Pr(๐‘€ = ๐‘š|๐ด = 0) โ€ข Natural indirect effect: ๐‘๐ผ๐ธ|๐‘š = ๐‘Œ ๐‘€ = ๐‘€1 ๐ด = 1 โˆ’ ๐‘Œ ๐‘€ = ๐‘€0 ๐ด = 1 ๐ธ ๐‘๐ผ๐ธ = เท ๐‘š ๐ธ ๐‘Œ ๐ด = 1, ๐‘š {Pr ๐‘€ = ๐‘š ๐ด = 1 โˆ’ Pr ๐‘€ = ๐‘š ๐ด = 0 } โ€ข Total effect: ๐‘Œ1 โˆ’ ๐‘Œ0 = ๐‘๐ผ๐ธ + ๐‘๐ท๐ธ โ€ข No presuppose that no interactions between the exposure and mediator
  • 34. Approach 1) no unmeasured confounder assumption 34 1. No unmeasured exposure-outcome confounders given C 2. No unmeasured mediator-outcome confounders given (C,A) 3. No unmeasured exposure-mediator confounders given C 4. No unmeasured mediator-outcome confounder affected by exposure
  • 35. Approach 2) Regression model for causal mediation analysis 35 โ€ข Similar concepts apply to treatment levels A=a to A=a*, then get the expression of regression โ€“ ๐ธ ๐‘Œ ๐ด = ๐‘Ž, ๐‘€ = ๐‘š, ๐ถ = ๐‘ = ๐œƒ0 + ๐œƒ1๐‘Ž + ๐œƒ2๐‘š + ๐œƒ3๐‘Ž๐‘š + ๐œƒ4๐‘ โ€“ ๐ธ ๐‘€ ๐ด = ๐‘Ž, ๐ถ = ๐‘ = ๐›ฝ0 + ๐›ฝ1๐‘Ž + ๐›ฝ2๐‘ โ€“ ๐ถ๐ท๐ธ = ๐œƒ1 + ๐œƒ3๐‘š ๐‘Ž โˆ’ ๐‘Ž โˆ— โ€“ ๐‘๐ท๐ธ = ๐œƒ1 + ๐œƒ3 ๐›ฝ0 + ๐›ฝ1๐‘Ž + ๐›ฝ2๐ธ ๐ถ ๐‘Ž โˆ’ ๐‘Ž โˆ— โ€“ ๐‘๐ผ๐ธ = ๐œƒ2๐›ฝ1 + ๐œƒ3๐›ฝ1๐‘Ž ๐‘Ž โˆ’ ๐‘Ž โˆ— โ€ข SE can be obtained using the delta โ€ข Proportion mediated is the indirect effect divided by the total effect (SAS, STATA and SPSS can do automatically for continuous, binary, count, and time-to-event outcomes
  • 36. Approach 2) cautions for binary outcomes 36 โ€ข Difference method for a dichotomous outcomes and logistic regression will give valid estimates, provided โ€“ Model without the interaction is correctly specified โ€“ No unmeasured confounding assumptions are satisfied โ€“ Outcome is rare (can be relaxed by using log-linear) โ€ข With common outcome, the difference method fails with logistic regression due to non-collapsibility โ€ข Monte Carlo approach, a simulation-based approach give more flexibility
  • 37. Approach 3) sensitivity analysis 37 โ€ข In order to examine the extent to which the unmeasured confounder would have to affect both the mediator and the outcome to invalidate conclusions about NDE and NIE โ€ข With an observed NDE or NIE of RR, we have unmeasured confounder if ๐‘…๐‘…๐‘ˆ๐‘Œ and ๐‘…๐‘…๐ด๐‘ˆ|๐‘€ are greater than: โ€“ ๐ธ โˆ’ ๐‘ฃ๐‘Ž๐‘™๐‘ข๐‘’ = ๐‘…๐‘… + ๐‘ ๐‘ž๐‘Ÿ๐‘ก[๐‘…๐‘… ร— ๐‘…๐‘… โˆ’ 1 ] โ€“ ๐‘…๐‘…๐‘ˆ๐‘‡|๐ด = 1, ๐‘š = max max Pr(๐‘Œ=1|๐ด=1,๐‘š) min Pr(๐‘Œ=1|๐ด=1,๐‘š) : the max effect among exposed of U on Y, not through M โ€“ ๐‘…๐‘…๐ด๐‘ˆ|๐‘š = ๐‘š๐‘Ž๐‘ฅ Pr(๐‘ข|๐ด=1,๐‘š) Pr(๐‘ข|๐ด=0,๐‘š) : smaller in magnitude on the RR scale than magnitude of max effect U on M across strata of A โ€“ We can apply this in a routine manner to both the estimate and the confidence interval limit closest to the null
  • 38. Surrogate paradox 38 โ€ข โ€œsurrogate paradoxโ€ is manifest if โ€“ The surrogate and outcome are strongly positively correlated โ€“ The treatment has a positive effect on the surrogate โ€“ The treatment has a negative effect on the outcome โ€ข Might happen if โ€“ E[Y|a,s,u] is NOT non-decreasing in a, i.e. a negative direct effect of A on Y, OR โ€“ E[Y|a,su] is NOT non-decreasing in s, i.e. the positive correlation of S and Y is not because of the actual effect but because of confounding, OR โ€“ P(S>s|a,u) is NOT non-decreasing in a, i.e. transitivity fails; A affects S for different people than S affects Y
  • 39. Unification of Mediation and Interaction 39 โ€ข Assess mediation in the presence of interaction to get direct and indirect effects โ€ข Under the composition assumption that ๐‘Œ๐‘Ž = ๐‘Œ๐‘Ž๐‘€๐‘Ž, total effects can be decomposed into four components โ€“ ๐‘Œ1 โˆ’ ๐‘Œ0 = ๐‘Œ10 โˆ’ ๐‘Œ00 + ๐‘Œ11 โˆ’ ๐‘Œ10 โˆ’ ๐‘Œ01 + ๐‘Œ00 ๐‘€0 + ๐‘Œ11 โˆ’ ๐‘Œ10 โˆ’ ๐‘Œ01 + ๐‘Œ00 ( ) ๐‘€1 โˆ’ ๐‘€0 + ๐‘Œ10 โˆ’ ๐‘Œ00 ๐‘€1 โˆ’ ๐‘€0 โ€“ CDE : effect of A in the absence of M โ€“ INTref : interaction that operates only if the mediator is present in the absence of exposure โ€“ INTmed : interaction that operates only if the exposure changes the mediator โ€“ PIE : effect of the mediator in the absence of the exposure times the effect of the exposure on the mediator
  • 40. CAUSAL METHODS TO TAME UNMEASURED CONFOUDING - ERIC TCHETGEN TCHETGEN
  • 41. Instrumental variable (IV) 41 โ€ข IV approach refers to a particular set of methods that allow one to recover a causal effect of an exposure in the presence of unmeasured confounding โ€ข Key assumption : one has observed a pre-exposure unconfounded IV, which affects the outcome only through its effects on the exposure ๐‘Œโˆ๐‘|๐‘ˆ, ๐ด โ€ข Mendelian randomization is also kind of instrumental variable approach
  • 42. Formal definition of IV 42 โ€ข Assumption 1) Z and A are associated, Z has a causal effect on A, or Z and A share common causes โ€ข Assumption 2) Z affects the outcome Y only through A, i.e. no direct effect of Z on Y (exclusion restriction) โ€ข Assumption 3) Z does not share common causes with the outcome Y, i.e. no confounding for the effect of Z on Y โ€ข Assumption 4) Monotonicity : there are no defiers, that is, there is only never takers (๐ด0 = 0, ๐ด1 = 0), always takers (๐ด0 = 1, ๐ด1 = 1), compliers (๐ด0 = 0, ๐ด1 = 1), but defiers (๐ด0 = 1, ๐ด1 = 0),
  • 43. Complier average causal effect(CACE) 43 โ€ข The causal effect for individuals who would adhere to their assignment โ€ข OR, the effect for individuals for whom treatment is manipulable โ€ข Instrumental variable estimand ๐›ฝ๐ด = ๐›ฝ๐‘ ๐›ผ๐‘ = ๐‘๐‘Ž๐‘ข๐‘ ๐‘Ž๐‘™ ๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก ๐‘œ๐‘“ ๐‘ ๐‘œ๐‘› ๐‘Œ ๐‘๐‘Ž๐‘ข๐‘ ๐‘Ž๐‘™ ๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก ๐‘œ๐‘“ ๐‘ ๐‘œ๐‘› ๐ด โ€ข Wald estimand โ€“ ๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก ๐‘œ๐‘“ ๐‘Ÿ๐‘Ž๐‘›๐‘‘๐‘œ๐‘š๐‘–๐‘ง๐‘Ž๐‘ก๐‘–๐‘œ๐‘› ๐‘œ๐‘› ๐‘Œ=๐ผ๐‘‡๐‘‡ ๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก ๐‘’๐‘“๐‘“๐‘’๐‘๐‘ก ๐‘œ๐‘“ ๐‘Ÿ๐‘Ž๐‘›๐‘‘๐‘œ๐‘š๐‘–๐‘ง๐‘Ž๐‘ก๐‘–๐‘œ๐‘› ๐‘œ๐‘› ๐‘๐‘œ๐‘š๐‘๐‘™๐‘–๐‘Ž๐‘›๐‘๐‘’ = ๐ธ ๐‘Œ ๐‘ = 1 โˆ’๐ธ(๐‘Œ|๐‘=0) Pr ๐ด = 1 ๐‘ = 1 โˆ’Pr(๐ด=1|๐‘=0) โ€ข CACE โ€“ ๐ถ๐ด๐ถ๐ธ = ๐ธ ๐‘Œ1 โˆ’ ๐‘Œ0 ๐ด1 > ๐ด0 = ๐ธ ๐‘Œ ๐‘ = 1 โˆ’๐ธ(๐‘Œ|๐‘=0) Pr ๐ด = 1 ๐‘ = 1 โˆ’Pr(๐ด=1|๐‘=0) โ€“ However, both counterfactuals are never observed for a person, thus compliers are not identified
  • 44. Effect of treatment on the treated (ETT) 44 โ€ข Alternative assumption 4) no current treatment value interaction โ€ข The advantage is that it does not require the monotonicity assumption, BUT requires ruling out the possibility of effect heterogeneity of the effect of A in the treated โ€ข ๐ธ๐‘‡๐‘‡ = ๐ธ ๐‘Œ ๐‘ = 1 โˆ’๐ธ(๐‘Œ|๐‘=0) Pr ๐ด = 1 ๐‘ = 1 โˆ’Pr(๐ด=1|๐‘=0) = ๐ธ ๐‘Œ1 โˆ’ ๐‘Œ0 ๐ด = 1
  • 45. Average Causal Effect (ACE) 45 โ€ข Required extra assumption 5) homogeneity assumption โ€ข ๐ด๐ถ๐ธ = ๐ธ ๐‘Œ๐‘Ž=1 โˆ’ ๐‘Œ๐‘Ž=0 = ๐ธ ๐‘Œ ๐‘ = 1 โˆ’๐ธ(๐‘Œ|๐‘=0) Pr ๐ด = 1 ๐‘ = 1 โˆ’Pr(๐ด=1|๐‘=0)
  • 46. Covariates 46 โ€ข In the IV approach, we must account for covariates to โ€“ Account for confounding of the effects of Z on Y, and preventing a violation of the exclusion restriction by C โ€“ Partially account for confounding of the effects of A on Y โ€“ Explain variation in the outcome Y to improve efficiency
  • 47. Two stage least square (2SLS) 47 โ€ข Another methods to estimate the causal effect instead of IV estimand or wald estimand โ€ข Stage 1: fit a linear regression of A on Z and C, and compute the predicted value แˆ˜ ๐ด = เท  ๐ธ ๐ด ๐‘, ๐ถ = เทž ๐›ผ0 + เทž ๐›ผ1๐‘ + เทž ๐›ผ2๐ถ โ€ข Stage 2:fit a linear regression of Y on predicted A and C ๐ธ ๐‘Œ แˆ˜ ๐ด, ๐ถ = ๐œ‡0 + ๐œ‡1 แˆ˜ ๐ด + ๐œ‡2๐ถ
  • 48. Reference 1 2 Hernรกn MA, Robins JM (2019). Causal Inference. Boca Raton: Chapman & Hall/CRC, forthcoming. https://www.hsph.harvard.edu/miguel-hernan/causal-inference- book/ VanderWeele, T. (2015). Explanation in causal inference: methods for mediation and interaction. Oxford University Press. https://www.amazon.com/Explanation-Causal-Inference- Mediation-Interaction/dp/0199325871 48
  • 49. Thank you for your attention!