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Confounder-robust causal discovery and inference in Perturb-seq using proxy and instrumental variables

利用代理变量与工具变量处理 Perturb-seq 中的未观测混杂

Emerging single-cell technologies that combine CRISPR-based genetic perturbations with single-cell RNA sequencing, such as Perturb-seq, offer unprecedented opportunities to uncover cause-and-effect relationships among genes. Nonetheless, Perturb-seq experiments are subject to unobserved factors that, if not properly handled, can severely bias the inferred causal relationships between genes. These latent factors may arise not only from intrinsic molecular features of the…

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Inference on the TSLS Estimand with Weak Instruments and Treatment Effect Heterogeneity

弱工具变量与处理效应异质性下对两阶段最小二乘目标量的推断

Traditional inference on the coefficient in an instrumental variables regression does not retain size when the instrument set is weak. With constant treatment effects or one instrument, the Anderson and Rubin (1949) AR test, the Klieibergen (2002)-Moreira (2003) LM test, and the Moreira CLR test provide robust alternatives which retain validity. Under treatment effect heterogeneity, no valid inference procedure exists in the overidentified setting. This paper develops the…

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A General Framework for Design-Based Treatment Effect Estimation in Paired Cluster-Randomized Experiments

配对整群随机实验中基于设计的处理效应估计框架

Paired cluster-randomized experiments (pCRTs) are common in education program impact evaluation trials. Although common, there is surprisingly no clear consensus regarding how to analyze this randomization design to estimate average treatment effects. Variance estimation is also complicated due to the dependency created through pairing clusters. Therefore, we aim to provide an intuitive and practical comparison between different estimation strategies for pCRTs to inform…

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Robust and Sparse Generalized Linear Models for High-Dimensional Data via Maximum Mean Discrepancy

基于最大均值差异的高维广义线性模型稳健稀疏估计

High-dimensional datasets are frequently subject to contamination by outliers and heavy-tailed noise, which can severely bias standard regularized estimators like the Lasso. While Maximum Mean Discrepancy (MMD) has recently been introduced as a ``universal'' framework for robust regression, its application to high-dimensional Generalized Linear Models (GLMs) remains largely unexplored, particularly regarding variable selection. In this paper, we propose a penalized MMD…

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A Mixed Model Approach for Estimating Regional Functional Connectivity from Voxel-level BOLD Signals

基于体素级BOLD信号的区域功能连接混合模型估计

Resting-state brain functional connectivity quantifies the synchrony between activity patterns of different brain regions. In functional magnetic resonance imaging, each region comprises a set of spatially contiguous voxels at which blood-oxygen-level-dependent signals are acquired. The ubiquitous Correlation of Averages (CA) estimator, and other similar metrics, are computed from spatially aggregated signals within each region, and remain the quantifications of…

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Robustly estimating heterogeneity in factorial data using Rashomon Partitions

利用 Rashomon 分区稳健估计因子组合数据中的异质性

In both observational data and randomized control trials, researchers select statistical models to articulate how the outcome of interest varies with combinations of observable covariates. Choosing a model that is too simple can obfuscate important heterogeneity in outcomes between covariate groups, while too much complexity risks identifying spurious patterns. In this paper, we propose a novel Bayesian framework for model uncertainty called Rashomon Partition Sets (RPSs).…

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Causality versus Serial Correlation: an Asymmetric Portmanteau Test

因果性与序列相关:非对称 Portmanteau 检验

This paper studies specification testing in dynamic linear models in the presence of omitted variables. The null hypothesis of interest is weak exogeneity: shocks have zero conditional expectation given their own past and the past of omitted variables. Existing tests based on quadratic forms of serial cross-correlations suffer from size distortions because their variance incorporates symmetric dependence in both directions, including causality from past shocks to present…

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Learning Collapsed Patterns in Compositional Data: A Bayesian Heterogeneous Relative-Shift Approach

成分数据中的坍缩模式学习:贝叶斯异质相对偏移方法

Relative-shift regression provides a principled framework for modeling compositional covariates by quantifying how the response changes when mass is reallocated from one component to another. Yet many emerging compositional data problems extend beyond this classical setting, involving high-dimensional predictors and regression effects that vary across latent subpopulations. This complexity poses a dual challenge unmet by existing methods: recovering latent cluster structure…

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Testing identification in mediation and dynamic treatment models

中介模型与动态处理模型中的识别检验

We propose a test for the identification of causal effects in mediation and dynamic treatment models that is based on two sets of observed variables, namely covariates to be controlled for and suspected instruments, building on the test by Huber and Kueck (2022) for single treatment models. We consider models with a sequential assignment of a treatment and a mediator to assess the direct treatment effect (net of the mediator), the indirect treatment effect (via the…

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Testing Full Mediation of Treatment Effects and the Identifiability of Causal Mechanisms

处理效应完全中介与因果机制可识别性的检验

In causal analysis, understanding the causal mechanisms through which an intervention or treatment affects an outcome is often of central interest. We propose a test to evaluate (i) whether the causal effect of a treatment that is randomly assigned conditional on covariates is fully mediated by, or operates exclusively through, observed intermediate outcomes (referred to as mediators or surrogate outcomes), and (ii) whether the various causal mechanisms operating through…

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A Grid-Rate Condition for Valid Uniform Inference

有效一致推断的网格增长速率条件

Conducting uniform inference on a continuous functional F defined on a compact subset X of R^d involves specifying L_n^d nodes for estimation and the construction of confidence bands. While asymptotically valid inference requires L_n to increase with n, existing fixed-L rules of thumb and heuristic data-driven approaches lack formal justification. This paper shows that, for functions within a Donsker class, the simple grid-growth condition r_n^(1/4)/L_n -> 0, equivalently…

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Detecting Model Misspecification in Bayesian Inverse Problems via Variational Gradient Descent

基于变分梯度下降的贝叶斯反问题模型误设检测

Bayesian inference is optimal when the statistical model is well-specified, while outside this setting Bayesian inference can catastrophically fail; accordingly a wealth of post-Bayesian methodologies have been proposed. Predictively oriented (PrO) approaches lift the statistical model $P_θ$ to an (infinite) mixture model $\int P_θ\; \mathrm{d}Q(θ)$ and fit this predictive distribution via minimising an entropy-regularised objective functional. In the well-specified setting…

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CausalAlpha: A Real-Time Geopolitical Risk Index from OSINT Channels for Causal Discovery in Financial Markets

CausalAlpha:基于开源情报的实时地缘政治风险指数与金融因果发现

We introduce CausalAlpha, an open-source framework that constructs a high-frequency Geopolitical Risk (GPR) index from Telegram OSINT channels using natural language processing, and applies causal discovery methods to identify the directed causal structure between geopolitical uncertainty and financial market variables. Unlike standard sentiment indices or Granger-causality approaches, CausalAlpha employs the Peter-Clark (PC) algorithm to recover the directed acyclic graph…

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Causal inference of Plackett-Burman designs in applications

Plackett–Burman 设计应用中的因果推断

Driven by four applications of Plackett-Burman (PB) designs, this paper proposes a causal inference framework based on potential outcomes. First, we define the causal effects of the PB designs under finite populations. The Neymanian estimator of causal effects is then obtained, including the estimated variance and covariance. Furthermore, we conduct a sharp null-hypothesis test and construct the Fisherian interval using an algorithm. Finally, the proposed methods are…

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Sequential algorithm for structural estimations with equilibrium constraints

带均衡约束的结构估计序贯算法

This study examines sequential algorithms with the Zero Jacobian Property (ZJP) for estimating structural models subject to equilibrium constraints. For the Maximum Likelihood Estimation (MLE) and the Generalized Method of Moments (GMM), the current study shows that these algorithms attains fast (near-quadratic) local convergence in large samples to the solution of the constrained optimization problem. If consistent initial estimates of the parameters are available, the…

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MediEncoder: Nonlinear Representation Learning for High-Dimensional Causal Mediation Analysis

MediEncoder:高维因果中介分析的非线性表示学习

Causal mediation analysis decomposes a treatment effect into indirect pathways through mediators and direct pathways not operating through them. Modern biomedical studies often involve high-dimensional covariates and mediators that are noisy proxies for lower-dimensional latent biological processes. Existing methods typically rely on sparsity, linear factor models, or ignore the connection among variables in the learned representations, which can be restrictive when…

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Bayesian genome-wide clustering and variable selection of transcriptomic data via rank-based mixtures

基于秩混合模型的转录组数据贝叶斯全基因组聚类与变量选择

With the increasing availability of ranking data, there has been a growing demand for appropriate unsupervised rank-based inferential frameworks capable of handling high-dimensional datasets and providing uncertainty quantification for all estimates. Rank-based methods have also seen a growing popularity in -omics pipelines, as ranking continuous measurements provides a robust means of handling non-normally distributed data. The Bayesian Mallows model (BMM) has emerged as a…

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The Markup falsification Adaptative Set

加成率估计的证伪自适应集合

In this paper we provide a constructive way for researchers to salvage the classic De Loecker and Warzynski (2012) markup recovery procedure when falsified. To do this, we consider continuous relaxations of the standard assumptions behind markup estimation. By computing the values of the markup as a function of the relaxations across the set of non-falsified models, we obtain an identified set for the markup which generalizes the standard baseline markup estimand to account…

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Heterogeneity in peer effects for binary outcomes

二元结果中的异质同伴效应

I introduce heterogeneity into the analysis of peer effects arising from conformity by allowing peer-effect parameters to vary across agents' actions. Using a structural model based on a simultaneous network game with incomplete information, I derive conditions that guarantee the uniqueness of the equilibrium and the identification of heterogeneous peer-effect parameters. Applying the model to data on smoking and alcohol consumption among secondary school students, and…

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Directional-Shift Dirichlet ARMA Models for Compositional Time Series with Structural Break Intervention

具有结构突变干预的方向位移 Dirichlet ARMA 组成时间序列模型

Compositional time series frequently exhibit structural breaks due to external shocks, policy changes, or market disruptions. Standard methods either ignore such breaks or handle them through fixed effects that cannot extrapolate beyond the sample, or step-function dummies that impose instantaneous adjustment. We develop a Bayesian Dirichlet ARMA model augmented with a directional-shift intervention mechanism that captures structural breaks through three interpretable…

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Leveraging External Controls for Treatment Switching in Randomized Controlled Trials: A Weighted Causal Inference Framework for Overall Survival

利用外部对照调整随机试验中的治疗转换:总生存期的加权因果框架

In many oncology clinical trials where overall survival is a key endpoint, patients are permitted to switch from the control arm to the experimental treatment arm or other suitable therapies. Switching can occur for various reasons, including disease progression. This violates the causal guarantees of randomized treatment assignment, resulting in biased treatment effect estimates. Existing methods often require strong assumptions, complicated model specifications, or both.…

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Moments by Integrating the Moment-Generating Function

通过积分矩母函数计算各类矩

We introduce a general integral framework for computing fractional, complex, absolute, and logarithmic moments from the moment-generating function (MGF) under explicit regularity conditions. By evaluating a complex extension of the MGF along a vertical contour, we obtain exact integral expressions that bypass the need for explicit probability densities and high-order derivatives. We establish conditions for negative fractional moments using the symmetric Cauchy principal…

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Tractable Estimation of Nonlinear Panels with Interactive Fixed Effects

含交互固定效应的非线性面板模型的可计算估计

Interactive fixed effects are routinely controlled for in linear panel models. While an analogous fixed effects (FE) estimator for nonlinear models has been available in the literature (Chen, Fernandez-Val and Weidner, 2021), it sees much more limited use in applied research because its implementation involves solving a high-dimensional non-convex problem. In this paper, we complement the theoretical analysis of Chen, Fernandez-Val and Weidner (2021) by providing a new…

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Optimally taming biases in black-box models for efficient semiparametric estimation

优化控制黑箱模型偏差以实现有效半参数估计

Modern semiparametric estimation often relies on flexible black-box machine learning methods to estimate nuisance functions, raising a fundamental question: how do nuisance estimation errors propagate into inference for low-dimensional target parameters? The dominant paradigm, exemplified by double machine learning (DML), yields error bounds in which nuisance estimation errors enter multiplicatively. While widely adopted, it remains unclear whether this multiplicative-rate…

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