CausalBench: A Large-scale Benchmark for Network Inference from Single-cell Perturbation Data

31 October 2022

Yusuf Roohani

Papers citing "CausalBench: A Large-scale Benchmark for Network Inference from Single-cell Perturbation Data"

23 / 23 papers shown

Title
In-silico biological discovery with large perturbation models Djordje Miladinovic Tobias Hoppe Mathieu Chevalley Andreas Georgiou Lachlan Stuart Arash Mehrjou M. Bantscheff Bernhard Schölkopf Patrick Schwab 34 0 0 30 Mar 2025
CausalRivers -- Scaling up benchmarking of causal discovery for real-world time-series Gideon Stein M. Shadaydeh Jan Blunk Niklas Penzel Joachim Denzler AI4TS 37 0 0 21 Mar 2025
Addressing pitfalls in implicit unobserved confounding synthesis using explicit block hierarchical ancestral sampling Xudong Sun Alex Markham Pratik Misra Carsten Marr CML 68 0 0 12 Mar 2025
Large Language Models for Zero-shot Inference of Causal Structures in Biology Izzy Newsham Luka Kovacevic Richard Moulange Nan Rosemary Ke Sach Mukherjee AI4CE 58 0 0 06 Mar 2025
IGDA: Interactive Graph Discovery through Large Language Model Agents Alex Havrilla David Alvarez-Melis Nicolò Fusi AI4CE 45 0 0 24 Feb 2025
CausalMan: A physics-based simulator for large-scale causality Nicholas Tagliapietra J. Luettin Lavdim Halilaj Moritz Willig Tim Pychynski Kristian Kersting CML 55 0 0 18 Feb 2025
Achievable distributional robustness when the robust risk is only partially identified Julia Kostin Nicola Gnecco Fanny Yang 64 3 0 04 Feb 2025
GPO-VAE: Modeling Explainable Gene Perturbation Responses utilizing GRN-Aligned Parameter Optimization Seungheun Baek Soyon Park Y. T. Chok Mogan Gim Jaewoo Kang DRL 40 0 0 31 Jan 2025
Scalable Temporal Anomaly Causality Discovery in Large Systems: Achieving Computational Efficiency with Binary Anomaly Flag Data M. Asres C. Omlin the CMS-HCAL Collaboration 71 0 0 16 Dec 2024
Efficient Differentiable Discovery of Causal Order Mathieu Chevalley Arash Mehrjou Patrick Schwab 40 0 0 11 Oct 2024
Simulation-based Benchmarking for Causal Structure Learning in Gene Perturbation Experiments Luka Kovacevic Izzy Newsham Sach Mukherjee John Whittaker CML 32 2 0 08 Jul 2024
Deriving Causal Order from Single-Variable Interventions: Guarantees & Algorithm Mathieu Chevalley Patrick Schwab Arash Mehrjou 28 1 0 28 May 2024
Sample, estimate, aggregate: A recipe for causal discovery foundation models Menghua Wu Yujia Bao Regina Barzilay Tommi Jaakkola CML 41 7 0 02 Feb 2024
Assessing the overall and partial causal well-specification of nonlinear additive noise models Christoph Schultheiss Peter Bühlmann CML 16 1 0 25 Oct 2023
Causal Inference in Gene Regulatory Networks with GFlowNet: Towards Scalability in Large Systems Trang Nguyen Alexander Tong Kanika Madan Yoshua Bengio Dianbo Liu 17 4 0 05 Oct 2023
CausalTime: Realistically Generated Time-series for Benchmarking of Causal Discovery Yuxiao Cheng Ziqian Wang Tingxiong Xiao Qin Zhong J. Suo Kunlun He AI4TS CML 30 11 0 03 Oct 2023
The CausalBench challenge: A machine learning contest for gene network inference from single-cell perturbation data Mathieu Chevalley Jacob A. Sackett-Sanders Yusuf Roohani Pascal Notin A. Bakulin ... Achille Nazaret Markus Püschel Chris Wendler Arash Mehrjou Patrick Schwab CML 29 10 0 29 Aug 2023
Causality-oriented robustness: exploiting general noise interventions Xinwei Shen Peter Buhlmann Armeen Taeb OOD 45 7 0 18 Jul 2023
Benchmarking Bayesian Causal Discovery Methods for Downstream Treatment Effect Estimation Chris C. Emezue Alexandre Drouin T. Deleu Stefan Bauer Yoshua Bengio CML 27 2 0 11 Jul 2023
Multi-omics Prediction from High-content Cellular Imaging with Deep Learning Rahil Mehrizi Arash Mehrjou M. Alegro Yi Zhao Benedetta Carbone ... S. Sanford Hakan Keles M. Bantscheff Cuong Nguyen Patrick Schwab 13 4 0 15 Jun 2023
Learning DAGs from Data with Few Root Causes Panagiotis Misiakos Chris Wendler Markus Püschel CML 29 10 0 25 May 2023
Causal Fourier Analysis on Directed Acyclic Graphs and Posets B. Seifert Chris Wendler Markus Püschel 40 19 0 16 Sep 2022
Learning Sparse Nonparametric DAGs Xun Zheng Chen Dan Bryon Aragam Pradeep Ravikumar Eric P. Xing CML 103 258 0 29 Sep 2019