# UNSW Stats reading group 2016 - Causal DAGs

An introduction to conditional independence DAGs and their use for causal data.

October 17, 2016 — October 21, 2016

tl;dr:These are the notes from a reading group I lead in 2016 on causal DAGs; When I have time to expand these notes into complete sentences, I will migrate the good bits to an expanded and improved notebook on causal DAGS. For now see the updated and fixed version of this.

We follow Pearl’s summary (Pearl (2009a)). (approx sections 1-3 of the Pearl paper.)

In particular, I want to get to the identification of causal effects given an existing causal DAG from observational data with unobserved covariates via criteria such as the back-door criterion We’ll see.

Approach: casual, motivate Pearl’s pronouncements, without deriving everything from axioms. Not statistical; will not answer the question of how we infer graph structure from data. Will skip many complexities by taking several slightly over-restrictive conditions, which we would relax if we were not doing this in 1 hour.

Not covered: UGs, PDAGs…

Assumptions: No-one here is an expert in this DAG graphical formalism for causal inference.

## 1 Motivational examples

• Wet pavements
• Obesity contagion
• Nobel prizes and chocolate
• etc

## 2 Machinery

We are interested in representing influence between variables in a non-parametric fashion.

Our main tool to do this will be conditional independence DAGs, and causal use of these. Alternative name: “Bayesian Belief networks”. (Overloads “Bayesian”, so not used here)

### 2.1 DAGs

DAG: Directed (probabilistic) graphical model. Graph defined, as usual, defined by a set of vertexes and edges.

$\mathcal{G}=(\mathbf{V},E)$

We show the directs of edges by writing them as arrows.

For nodes $$X,Y\in V$$ we write (XY) to mean there is a directed edged joining them.

Familiar from, e.g., Structural equation models, hierarchical models, expert systems. General graph theory…

A graph with directed edges, and no cycles. (you cannot return to the same starting node traveling only forward along the arrows)

We need some terminology.

Parents
The parents of a node $$X$$ in a graph are all nodes joined to it by an incoming arrow, $$\operatorname{parents}(X)=\{Y\in V:Y\rightarrow X\}.$$
Children
similarly, $$\operatorname{parents}(X)=\{Y\in V:X\rightarrow Y\}.$$
Co-parent
$$\operatorname{coparents}(X)=\{Y\in V:\exists Z\in V \text{ s.t. } X\rightarrow Z\text{ and }Y\rightarrow Z\}.$$

Ancestors and descendants should be clear as well. For convenience, we define $$X\in\operatorname{parents}(X)$$

### 2.2 Random variables

I will deal with finite collections of random variables $$\mathbf{V}$$.

For simplicity of exposition, each of the RVs will be supported on $$\mathcal{X}_i\subset\mathbb{Z}$$, so that we may work with pmfs, and write $$p(X_i|X_j)$$ for the pmf. I may write $$p(x_i|x_j)$$ to mean $$p(X_i=x_i|X_j=x_j)$$.

Also we are working with sets of random variables rather than sets of events and the discrete state space reduces the need to discuss sets of events.

Extension to continuous RVs, or arbitrary RVs is trivial for everything I discuss here. (A challenge is if the probabilities are not all strictly positive.)

Motivation in terms of structural models.

\begin{aligned} X_6 &= f_6(X_4, X_3, \varepsilon_6) \\ X_5 &= f_5(X_4, X_3, \varepsilon_5) \\ X_4 &= f_4(X_3, X_2, X_1, \varepsilon_4) \\ X_3 &= f_3(\varepsilon_3) \\ X_2 &= f_2(X_1, \varepsilon_2) \\ X_1 &= f_3(\varepsilon_1) \\ \end{aligned}

Without further information about the forms of $$f_i$$ or $$\varepsilon_i$$, our assumptions have constrained our conditional independence relations to permit a particular factorization of the mass function:

$p(x_6, x_5, x_4, x_3, x_2, x_1) = p(x_1) p(x_2|x_1) p(x_3) p(x_4|x_1, x_2, x_3) p(x_5|x_3,x_4) p(x_6|x_3,x_4)$

We are “nonparametric” in the sense that working with this conditional factorization does not require any further parametric assumptions on the model.

However, we would like to proceed from this factorization to conditional independence, which is non-trivial. Specifically, we would like to know which variables are conditionally independent of others, given such an (assumed) factorization.

More notation: We write

$X \perp Y|Z$

for $$X$$ independent of $$Y$$ given $$Z$$.

We also use this notation for sets of random variables, and will bold them when it is necessary to emphasis this.

$\mathbf{X} \perp \mathbf{Y}|\mathbf{Z}$

Questions:

1. $$X_2\perp X_3$$?
2. $$X_2\perp X_3|X_1$$?
3. $$X_2\perp X_3|X_4$$?

However, this product notation is not illuminating; we use a graph formalism. That’s where the DAGs come in.

This will proceed in 3 steps

• The graphs will describe conditional factorization relations.

• We do some work to construct from these relations some conditional independence relations, which may be read off the graph.

• From these relations plus a causal interpretation we derive rules for identification of causal relations

• If we get further than that, it will be all about coffee

Anyway, a joint distribution $$p(\mathbb{X})$$ decomposes according to a directed graph $$G$$ if we may factor it

$p(X_1,X_2,\dots,X_v)=\prod_{X=1}^v p(X_i|\operatorname{parents}(X_i))$

Uniqueness?

It would be tempting to suppose that a node is independent of its children given its parents or somesuch. But things are not quite so simple.

Questions:

• $$\text{Sprinkler}\perp \text{Rain}$$?
• $$\text{Sprinkler}\perp \text{Rain}|\text{Wet season}$$?
• $$\text{Sprinkler}\perp \text{Rain}|\text{Wet pavement}$$?
• $$\text{Sprinkler}\perp \text{Rain}|\text{Wet season}, \text{Wet pavement}$$?

To make precise statements about conditional independence relations we do more work.

We need new graph vocabulary and conditional independence vocabulary.

Axiomatic characterisation of conditional independence. .

Theorem: () For disjoint subsets $$\mathbf{W},\mathbf{X},\mathbf{Y},\mathbf{Z}\subseteq\mathbf{V}.$$

Then the relation $$\cdot\perp\cdot|\cdot$$ satisfies the following relations:

\begin{aligned} \mathbf{X} \perp \mathbf{Z} |\mathbf{Y} & \Leftrightarrow & \mathbf{Z}\perp \mathbf{X} | \mathbf{Y} && \text{ Symmetry }&\\ \mathbf{X} \perp \mathbf{Y}\cup \mathbf{W} |\mathbf{Z} & \Rightarrow & \mathbf{X} \perp \mathbf{Y} \text{ and } \mathbf{X} \perp \mathbf{W} && \text{ Decomposition }&\\ \mathbf{X} \perp \mathbf{Y}\cup \mathbf{W} |\mathbf{Z} & \Rightarrow & \mathbf{X} \perp \mathbf{Y}|\mathbf{Z}\cup\mathbf{W} && \text{ Weak Union }&\\ \mathbf{X} \perp \mathbf{Y} |\mathbf{Z} \text{ and } \mathbf{X} \perp \mathbf{W}|\mathbf{Z}\cup \mathbf{Y} |\mathbf{Z} & \Rightarrow & \mathbf{X} \perp \mathbf{Y}\cup \mathbf{W}|\mathbf{Z} && \text{ Contraction }&\\ \mathbf{X} \perp \mathbf{Y} |\mathbf{Z}\cup \mathbf{W} \text{ and } \mathbf{X} \perp \mathbf{W} |\mathbf{Z}\cup \mathbf{Y} & \Rightarrow & \mathbf{X}\perp \mathbf{W}\cup\mathbf{Y} | \mathbf{Z} && \text{ Intersection } & (*)\\ \end{aligned}

(*) The Intersection axiom only holds for strictly positive distributions.

How can we relate this to the topology of the graph?

The flow of conditional information does not correspond exactly to the marginal factorization, but it relates. (mention UG connections?)

Definition: A set $$\mathbf{S}$$ blocks a path $$\pi$$ from X to Y in a DAG $$\mathcal{G}$$ if either

1. There a node $$a\in\pi$$ which is not a collider on $$\pi$$ such that $$a\in\mathbf{S}$$

2. There a node $$b\in\pi$$ which is a collider on $$\pi$$ and $$\operatorname{descendants}(b)\cap\mathbf{S}=\emptyset$$

If a path is not blocked, it is active.

Definition: A set $$\mathbf{S}$$ d-separates two subsets of nodes $$\mathbf{X},\mathbf{X}\subseteq\mathcal{G}$$ if it blocks every path between any every pair of nodes $$(A,B)$$ such that $$A\in\mathbf{X},\, B\in\mathbf{Y}.$$

This looks ghastly and unintuitive, but we have to live with it because it is the shortest path to making simple statements about conditional independence DAGs without horrible circumlocutions, or starting from undirected graphs, which is tedious.

Theorem: . If the joint distribution of $$\mathbf{V}$$ factorises according to the DAG $$\mathbf{G}$$ then for two subsets of variables $$\mathbf{X}\perp\mathbf{Y}|\mathbf{S}$$ iff $$\mathbf{S}$$ d-separates $$\mathbf{X}$$ and $$\mathbf{Y}$$.

This puts us in a position to make non-awful, more intuitive statements about the conditional independence relationships that we may read off the DAG.

Corollary: The DAG Markov property.

$X \perp \operatorname{descendants}(X)^C|\operatorname{parents}(X)$

Corollary: The DAG Markov blanket.

Define

$\operatorname{blanket}(X):= \operatorname{parents}(X)\cup \operatorname{children}(X)\cup \operatorname{coparents}(X)$

Then

$X\perp \operatorname{blanket}(X)^C|\operatorname{blanket}(X)$

## 3 Causal interpretation

Finally!

We have a DAG $$\mathcal{G}$$ and a set of variables $$\mathbf{V}$$ to which we wish to give a causal interpretation.

Assume

1. The $$\mathbf{V}$$ factors according to $$\mathcal{G}$$
2. $$X\rightarrow Y$$ means “causes” (The Causal Markov property)
3. We additionally assume faithfulness, that is, that $$X\leftrightsquigarrow Y$$ iff there is a path connecting them.

So, are we done? Only if correlation equals causation.

1. all the relevant variables are included in the graph. (We coyly avoid making this precise)

[…] Eric Cornell, who won the Nobel Prize in Physics in 2001, told Reuters “I attribute essentially all my success to the very large amount of chocolate that I consume. Personally I feel that milk chocolate makes you stupid… dark chocolate is the way to go. It’s one thing if you want a medicine or chemistry Nobel Prize but if you want a physics Nobel Prize it pretty much has got to be dark chocolate.”

Finally, we need to discuss the relationship between conditional dependence and causal effect. This is the difference between, say,

$P(\text{Wet pavement}|\text{Sprinkler}=on)$

and

$P(\text{Wet pavement}|\operatorname{do}(\text{Sprinkler}=on))$

Called “truncated factorization” in the paper. $$\text{do}$$-calculus and graph surgery.

If we know $$P$$, this is relatively easy. Marginalize out all influences to the causal variable of interest, which we show graphically as wiping out a link.

Now suppose we are not given complete knowledge of $$P$$, but only some of the conditional distributions. (there are unobservable variables). This is the setup of observational studies and epidemiology and so on.

What variables must we know the conditional distributions of in order to know the conditional effect? That is, we call a set of covariates $$\mathbf{S}$$ an admissible set (or sufficient set) with respect to identifying the effect of $$X$$ on $$Y$$ iff

$p(Y=y|do(X=x))=\sum_{\mathbf{s}} P(Y=y|X=x,\mathbf{S}=\mathbf{s}) P(\mathbf{S}=\mathbf{s})$

Criterion 1: The parents of a cause are an admissible set .

Criterion 2: The back door criterion.

A set $$\mathbf{S}$$ such that

1. $$\mathbf{S}\cap\operatorname{descendants}(X)=\emptyset$$

2. $$\mathbf{S}$$ blocks all paths which start with an arrow into $$\mathbf{X}$$

This is a sufficient condition.

Causal properties of sufficient sets:

$P(Y=y|\operatorname{do}(X=x),S=s)=P(Y=y|X=x,S=s)$

Hence

$P(Y=y|\operatorname{do}(X=x),S=s)=\sum_sP(Y=y|X=x,S=s)P(S=s)$

## 4 Examples

• $$i,j$$ are individuals,
• $$Z$$ denote observed traits,
• $$X$$ denote latent traits
• $$Y$$ denote observed outcomes
• $$A$$ is a network tie

$$X_i$$ d-separates $$Y_i(t)$$ from $$A_{ij}$$. Since $$X_i$$ is latent and unobserved, $$Y_i(t) \leftarrow X_i \rightarrow A_{ij}$$ is a confounding path from $$Y_i(t)$$ to $$A_{ij}$$. Likewise $$Y_j(t-1)\leftarrow X_j \rightarrow A_{ij}$$ is a confounding path from $$Yi(t-1)$$ to $$A_{ij}$$. Thus, $$Y_i(t)) and \(Y_i(t-1)$$ are d-connected when conditioning on all the observed (boxed) variables […] . Hence the direct effect of $$Y_i(t)$$ on $$Y_i(t-1)$$ is not identifiable

## 6 References

Aral, Muchnik, and Sundararajan. 2009. Proceedings of the National Academy of Sciences.
Arnold, Castillo, and Sarabia. 1999. Conditional Specification of Statistical Models.
Bareinboim, and Pearl. 2016. Proceedings of the National Academy of Sciences.
Bareinboim, Tian, and Pearl. 2014. In AAAI.
Bloniarz, Liu, Zhang, et al. 2015. arXiv:1507.03652 [Math, Stat].
Brodersen, Gallusser, Koehler, et al. 2015. The Annals of Applied Statistics.
Bühlmann. 2013. Mathematical Methods of Operations Research.
Bühlmann, Kalisch, and Meier. 2014. Annual Review of Statistics and Its Application.
Bühlmann, Peters, Ernest, et al. 2014.
Bühlmann, Rütimann, and Kalisch. 2013. Statistical Methods in Medical Research.
Chen, and Pearl. 2012. “Regression and Causation: A Critical Examination of Econometric Textbooks.”
Claassen, Mooij, and Heskes. 2014. arXiv:1411.1557 [Stat].
Colombo, Maathuis, Kalisch, et al. 2012. The Annals of Statistics.
De Luna, Waernbaum, and Richardson. 2011. Biometrika.
Elwert. 2013. In Handbook of Causal Analysis for Social Research. Handbooks of Sociology and Social Research.
Ernest, and Bühlmann. 2014. arXiv:1405.1868 [Stat].
Gelman. 2010. American Journal of Sociology.
Hinton, Osindero, and Bao. 2005. In Proceedings of the 10th International Workshop on Artificial Intelligence and Statistics.
Jordan, Michael Irwin. 1999. Learning in Graphical Models.
Jordan, Michael I., and Weiss. 2002a. The Handbook of Brain Theory and Neural Networks.
———. 2002b. Handbook of Neural Networks and Brain Theory.
Kalisch, and Bühlmann. 2007. Journal of Machine Learning Research.
Kennedy. 2015. arXiv Preprint arXiv:1510.04740.
Kim, and Pearl. 1983. In IJCAI.
Koller, and Friedman. 2009. Probabilistic Graphical Models : Principles and Techniques.
Lauritzen, Steffen L. 1996. Graphical Models. Oxford Statistical Science Series.
———. 2000. In Complex Stochastic Systems.
Lauritzen, S. L., and Spiegelhalter. 1988. Journal of the Royal Statistical Society. Series B (Methodological).
Maathuis, and Colombo. 2013. arXiv Preprint arXiv:1307.5636.
Maathuis, Colombo, Kalisch, et al. 2010. Nature Methods.
Maathuis, Kalisch, and Bühlmann. 2009. The Annals of Statistics.
Marbach, Prill, Schaffter, et al. 2010. Proceedings of the National Academy of Sciences.
Messerli. 2012. New England Journal of Medicine.
Mihalkova, and Mooney. 2007. In Proceedings of the 24th International Conference on Machine Learning.
Montanari. 2011.
Murphy. 2012. Machine learning: a probabilistic perspective. Adaptive computation and machine learning series.
Neapolitan. 2003. Learning Bayesian Networks.
Noel, and Nyhan. 2011. Social Networks.
Pearl. 1982. In Proceedings of the Second AAAI Conference on Artificial Intelligence. AAAI’82.
———. 1986. Artificial Intelligence.
———. 2008. Probabilistic reasoning in intelligent systems: networks of plausible inference. The Morgan Kaufmann series in representation and reasoning.
———. 2009a. Statistics Surveys.
———. 2009b. Causality: Models, Reasoning and Inference.
Peters, Bühlmann, and Meinshausen. 2015. arXiv:1501.01332 [Stat].
Raginsky. 2011. In 2011 49th Annual Allerton Conference on Communication, Control, and Computing (Allerton).
Rubin, and Waterman. 2006. Statistical Science.
Sauer, and VanderWeele. 2013. Use of Directed Acyclic Graphs.
Shalizi, and McFowland III. 2016. arXiv:1607.06565 [Physics, Stat].
Shalizi, and Thomas. 2011. Sociological Methods & Research.
Shpitser, and Pearl. 2008. “Complete Identification Methods for the Causal Hierarchy.” The Journal of Machine Learning Research.
Shpitser, and Tchetgen. 2014. arXiv:1411.2127 [Stat].
Smith, and Eisner. 2008. In Proceedings of the Conference on Empirical Methods in Natural Language Processing.
Spirtes, Glymour, and Scheines. 2001. Causation, Prediction, and Search. Adaptive Computation and Machine Learning.
Vansteelandt, Bekaert, and Claeskens. 2012. Statistical Methods in Medical Research.
Wright. 1934. The Annals of Mathematical Statistics.
Yedidia, Freeman, and Weiss. 2003. In Exploring Artificial Intelligence in the New Millennium.
Zhang, Peters, Janzing, et al. 2012. arXiv:1202.3775 [Cs, Stat].