New framework uses background knowledge to speed up causal discovery.
problem Scalable causal discovery for large datasets.
method Utilizes background knowledge during causal discovery process.
result Background knowledge reduces computational requirements and improves structure quality.
Paper presents a new dataset for testing causal discovery methods in industrial systems.
problem Lack of real-world datasets for evaluating causal discovery methods on time series data.
method Develops a dataset from an industrial system and its known causal graph.
result Provides a benchmark for evaluating causal discovery methods in complex systems.
Amortized Causal Discovery learns to infer causal graphs from time-series data, improving performance.
problem Inference of causal graphs from time-series data is inefficient due to fitting new models for each sample.
method Proposes Amortized Causal Discovery, a variational model that leverages shared dynamics across samples with different causal graphs.
result Significant improvements in causal discovery performance demonstrated experimentally.
CauScale efficiently discovers causal relationships in large graphs.
problem Efficiency bottlenecks in causal discovery for large graphs.
method Neural architecture with reduction unit and tied attention weights.
result Achieves 99.6% mAP on in-distribution data and 84.4% on out-of-distribution data.
This work tackles causal graph discovery with stochastic interventions to minimize the number of interventions.
problem Discovering the true causal graph from observational data with limited interventions.
method Proposes a stochastic intervention model and studies verification and search problems with approximation algorithms.
result Provides approximation algorithms with competitive ratios for verification and search problems.
Paper tackles dense subgraph discovery with noisy feedback.
problem Discover dense subgraphs in edge-weighted graphs with noisy feedback.
method Proposes polynomial-time and scalable algorithms for dense subgraph discovery.
result Polynomial-time algorithm obtains nearly-optimal solution with high probability.
Efficient algorithms decide algebraic constraints of causal graphs.
problem Distinguish causal graphs with latent confounders.
method Study algebraic constraints and propose efficient algorithms.
result Decide equivalence or subset of algebraic constraints.
DeepGG generates graph distributions for drug discovery and molecular design.
problem Learning graph distributions for various applications.
method Improved deep graph generator based on deep state machines with graph and node embeddings.
result The state machine design favors specific graph distributions.
New method recovers causal graphs from data scores in non-linear models.
problem Recovering causal graphs from data scores in non-linear models.
method Score matching algorithms and efficient Jacobian approximation.
result New method, SCORE, is competitive and faster than state-of-the-art methods.
New method discovers mean and variance causal graphs from heteroscedastic data.
problem Understanding causal relationships in data with varying variance.
method Bayesian, moment-driven approach inferring separate mean and variance causal graphs.
result Accurately recovers mean and variance structures from heteroscedastic data.
New method discovers causal relationships in large-scale data.
problem Discovering causal relationships in large datasets with thousands of variables.
method Factor Directed Acyclic Graphs (f-DAGs) combined with continuous optimization.
result Achieved causal discovery on thousands of variables.
A model learns causal graphs from summary statistics of synthetic data.
problem Causal discovery algorithms are brittle with large sets of variables and limited data.
method A supervised model trained on synthetic data predicts causal graphs from summary statistics.
result The model generalizes well beyond its training set and runs on large graphs.
A new algorithm for robust causal discovery in small sample sizes.
problem Limited data leads to weak conditional independence tests in causal discovery.
method Proposes a k-PC algorithm that bounds conditioning set size for robust causal discovery. result The k-PC algorithm enables more robust causal discovery in small sample sizes. Neural causal discovery methods fail to accurately uncover causal structures due to the faithfulness property.
problem Accuracy in neural causal discovery is limited, especially when distinguishing between existing and non-existing causal relationships.
method Systematic evaluation of neural causal discovery methods, focusing on their performance in finite sample regimes and their ability to recover ground-truth graphs.
result Neural networks lack the precision to reliably recover ground-truth causal graphs, even for small graphs and large sample sizes.
New method reduces errors in causal discovery from data.
problem Errors in causal discovery from limited data.
method Hierarchical wrapper for constraint-based algorithms.
result Significantly fewer tests, more accurate graphs, shorter run-times.
New measures assess differences in causal graphs' separations.
problem Evaluating causal discovery algorithms' output.
method Proposes new distance measures capturing causal graphs' separations.
result Proposed distances assess differences in causal graphs' separations.
Previous work in network analysis has focused on modeling the mixed-memberships of node roles in the graph, but not the roles of edges. We introduce the edge role discovery problem and present a generalizable framework for learning and extracting edge roles from arbitrary graphs automatically. Furthermore, while existi…
SNAP efficiently identifies causal effects without needing full graph learning.
problem Efficiently estimating causal effects on a subset of variables.
method Sequential Non-Ancestor Pruning (SNAP) framework.
result SNAP reduces independence tests and computation time without sacrificing causal effect estimations.
New assumptions help identify causal relationships in data.
problem Challenges in identifying causal relationships from observational data.
method Introduced typed directed acyclic graphs to constrain causal relationships.
result The proposed assumptions lead to significant gains in causal graph identification.
CardiGraphormer uses SSL and GNNs to improve drug discovery.
problem Challenges in drug discovery due to combinatorial chemical space and limited approved drugs.
method Combines self-supervised learning, Graph Neural Networks, and Cardinality Preserving Attention.
result Enhanced predictive performance and interpretability in drug discovery.
New distances for causal graphs improve evaluation of learned structures.
problem Difficulty in evaluating graphs learned by causal discovery algorithms.
method Developed a framework for causal distances, including new reachability algorithms.
result Improved distances are faster and more scalable than existing methods.
Visualizes deep generative models for drug design.
problem Limited visualization tools for deep generative models in drug discovery.
method Proposes a visualization framework for deep graph generative models.
result Interactive visualization and molecular optimization tools.
This paper presents a new open source Python framework for causal discovery from observational data and domain background knowledge, aimed at causal graph and causal mechanism modeling. The 'cdt' package implements the end-to-end approach, recovering the direct dependencies (the skeleton of the causal graph) and the ca…
New method controls false edge detections in Gaussian graphical models.
problem High false edge detections in well-established estimators.
method Nodewise variable selection approach to control false discovery rate.
result Significant gain in performance compared to competing methods.
MoFlow generates chemically valid molecular graphs from latent representations.
problem Generating chemically valid molecular graphs from latent representations is challenging.
method MoFlow uses a flow-based approach with Glow for bond generation and a novel graph conditional flow for atom generation, ensuring chemical validity and efficiency.
result MoFlow achieves state-of-the-art performance in molecular graph generation and optimization.
New algorithm discovers causal graphs efficiently from observational data.
problem Discovering causal graphs from observational data efficiently.
method Approximating the score function using machine learning and applying scalable techniques.
result DAS algorithm reduces complexity and achieves competitive accuracy.
A new algorithm reduces CI tests for causal graph recovery.
problem Exponential CI tests limit causal discovery algorithms.
method CCPG (Causal Consistent Partition Graph) with polynomial CI tests.
result CCPG efficiently recovers causal graph with polynomial tests.
Algorithm recovers causal graphs in presence of latent confounders and selection bias.
problem Recovering causal graphs in the presence of latent confounders and selection bias.
method Iterative causal discovery (ICD) algorithm that relies on causal Markov and faithfulness assumptions.
result Sound and complete algorithm that recovers the equivalence class of the underlying causal graph.
The paper controls false discovery rate in link prediction using conformal inference.
problem Identifying true edges in a graph while controlling false discoveries.
method Proposes a novel method based on conformal inference to control false discovery rate (FDR) in link prediction.
result Empirically demonstrates FDR control for both simulated and real data.
New method identifies causal graphs with limited data and noise.
problem Identifying causal graphs from observational data is generally impossible.
method Using additional data from two environments with different noise statistics, and assuming Gaussian noise.
result The entire causal graph can be uniquely identified with a constant number of environments.
DCCD-CONF discovers causal graphs with unmeasured confounders.
problem Discovering causal relationships in systems with unmeasured confounders.
method Differentiable learning of nonlinear cyclic causal graphs using interventional data.
result DCCD-CONF outperforms state-of-the-art methods in causal graph recovery and confounder identification.
This work integrates domain knowledge into A*-based causal discovery methods.
problem Efficiently incorporating domain knowledge into A*-based causal discovery methods.
method Integrates various types of domain knowledge into A*-based causal discovery methods, reducing the graph search space and improving computational gains.
result Small amounts of domain knowledge can dramatically speed up A*-based causal discovery and improve its performance and practicality.
Improved time series causal discovery with bootstrap aggregation and confidence measures.
problem Uncertainty estimation in time series causal discovery.
method Bootstrap aggregation and confidence measures for time series causal discovery.
result Bagged-PCMCI+ improves precision and recall compared to PCMCI+.
SPOT improves differentiable causal discovery by estimating skeleton posterior for latent confounders.
problem Scalable and accurate estimation of causal skeletons in the presence of latent confounders.
method SPOT (Skeleton Posterior-guided OpTimization) framework that estimates skeleton posterior and integrates it with differentiable causal discovery.
result SPOT enhances differentiable causal discovery by reducing the search space and improving accuracy.
The paper extends graph embedding models to handle multiple relations.
problem Link prediction in multi-relational networks.
method Generalized pseudo-Riemannian embedding models to multi-relational networks, considering relations as submanifolds.
result Validation of the approach in link prediction tasks, including knowledge graph completion and biological domain analysis.
Develops a model for causal discovery in path spaces.
problem Discover causal relationships in path spaces using asymmetric independence.
method Theory linking E-separation in DMGs to conditional independence in SDEs, proving global Markov property, characterizing equivalence classes of graphs.
result Each equivalence class of graphs has a greatest element as a parsimonious representation, which can be identified from data.
Method finds multiple noisy graph templates in large graphs.
problem Finding multiple graph templates in noisy large graphs.
method Iteratively penalizes node-pair similarity matrix in matched filter algorithm.
result Method can sequentially discover multiple templates under mild model conditions.
engGNN combines external and generated graphs to improve disease classification and biomarker discovery.
problem Challenges in integrating omics data due to high dimensionality and small sample sizes.
method Dual-graph framework that integrates external biological networks with data-driven generated graphs.
result engGNN outperforms state-of-the-art methods in disease classification and biomarker discovery.
We introduce a model for causal structure learning from multivariate functional data, even when graphs have cycles.
problem Discovering causal relationships from multivariate functional data with cycles.
method Functional linear structural equation model with a low-dimensional causal embedded space.
result The proposed model is causally identifiable under standard assumptions.
The paper compares two methods for handling missing data in causal discovery.
problem Handling missing data in causal discovery algorithms.
method Test-wise deletion and multiple imputation.
result Multiple imputation is more challenging for causal discovery than for estimation.
New framework learns complex AI attitudes from heterogeneous data.
problem Heterogeneous ordinal structure in AI attitudes, poorly captured by existing methods.
method Monotone Gaussian score embedding, BNP complexity discovery, confirmatory fixed-K estimation.
result Reduced holdout MSE by 25.8% over single-graph baseline.
New PCstar algorithm discovers causal structure of max-linear Bayesian networks.
problem Discovering causal structure in max-linear Bayesian networks due to non-faithfulness.
method PC algorithm modified with C∗-separation assumptions. result PCstar algorithm can orient additional edges not possible with standard PC algorithm.
The paper shows that relaxing assumptions about causal graphs can lead to exponentially large equivalence classes.
problem The size of Markov equivalence classes under relaxed assumptions.
method Analytical proofs for three settings: sparse random directed acyclic graphs, uniformly random acyclic directed mixed graphs, and uniformly random directed cyclic graphs.
result Exponentially large lower bounds for the expected size of Markov equivalence classes.
New method controls false discoveries in structured hypothesis spaces.
problem Controlling false discoveries in large-scale, interconnected hypothesis spaces.
method Reproducing Kernel Hilbert Space (RKHS) optimization for structured FDR control.
result Unified framework for continuous domains, graphs, and hierarchies.
New algorithm identifies causal relationships from graphs, even with selection bias.
problem Identifying causal relationships from graphs with selection bias.
method Developed a measure-theoretic version of Pearl's causal calculus and a sound, complete identification algorithm.
result General measure-theoretic version of causal calculus allows for identification of causal relationships under selection bias.
Predicating macroscopic influences of drugs on human body, like efficacy and toxicity, is a central problem of small-molecule based drug discovery. Molecules can be represented as an undirected graph, and we can utilize graph convolution networks to predication molecular properties. However, graph convolutional network…
Neural node embeddings have recently emerged as a powerful representation for supervised learning tasks involving graph-structured data. We leverage this recent advance to develop a novel algorithm for unsupervised community discovery in graphs. Through extensive experimental studies on simulated and real-world data, w…
Model discovers causal relationships from video data of physical systems.
problem Discover structural dependencies and causal interactions in physical systems from video data.
method End-to-end model with perception, inference, and dynamics modules; handles unknown interventions.
result Model correctly identifies causal interactions and makes long-term predictions.