Evidence map›Paper›PMID 39077372›Full record

ArticleJournal of the American Statistical Association2024

Nonlinear causal discovery with confounders.

Chunlin Li, Xiaotong Shen, Wei Pan

Abstract read
In one paragraph

Article in Journal of the American Statistical Association, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

6 citing papers in PubMed.

  1. Article
  2. Article
  3. Discovery and inference of a causal network with hidden confounding.Journal of the American Statistical Association · 2024
    Article
  4. Review
  5. Article
  6. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

3 authors.

Chunlin LiSchool of Statistics, University of Minnesota, Minneapolis, MN 55455.
Xiaotong ShenSchool of Statistics, University of Minnesota, Minneapolis, MN 55455.
Wei PanDivision of Biostatistics, University of Minnesota, Minneapolis, MN 55455.

Funding

Causal and integrative deep learning for Alzheimer's disease geneticsU01AG073079 · NIA · UNIVERSITY OF MINNESOTA · PI PAN, WEI · 2021 to 2025
$3.5M
Deep Learning with Neuroimaging Genetic Data for Alzheimer's DiseaseR01AG069895 · NIA · UNIVERSITY OF MINNESOTA · PI PAN, WEI, SHEN, XIAOTONG TOM · 2020 to 2024
$3.4M
Estimation and inference in directed acyclic graphical models for biological networksR01AG074858 · NIA · UNIVERSITY OF MINNESOTA · PI Wei Pan, XIAOTONG Tom SHEN · 2022 to 2026
$3.2M
Discovering causal genes, brain regions and other risk factors for Alzheimer's DiseaseR01AG065636 · NIA · UNIVERSITY OF MINNESOTA · PI PAN, WEI · 2020 to 2024
$3.1M
Powerful Inference and Prediction for Genetic AssociationR01HL105397 · NHLBI · UNIVERSITY OF MINNESOTA · PI PAN, WEI, SHEN, XIAOTONG TOM · 2011 to 2018
$2.9M
New Machine Learning Tools for Biomedical DataR01GM081535 · NIGMS · UNIVERSITY OF MINNESOTA · PI PAN, WEI, SHEN, XIAOTONG TOM · 2007 to 2014
$2.2M
Estimation and Inference of Gene Regulatory NetworksR01GM126002 · NIGMS · UNIVERSITY OF MINNESOTA · PI PAN, WEI, SHEN, XIAOTONG TOM · 2017 to 2020
$1.4M
Statistical Methods for Genomic DataR01GM113250 · NIGMS · UNIVERSITY OF MINNESOTA · PI PAN, WEI · 2014 to 2017
$702k
NHLBI NIH HHS R01 HL105397NIA NIH HHS R01 AG065636NIA NIH HHS R01 AG069895NIA NIH HHS R01 AG074858NIA NIH HHS U01 AG073079NIGMS NIH HHS R01 GM081535NIGMS NIH HHS R01 GM113250NIGMS NIH HHS R01 GM126002
6 · The paper itself

Abstract

This article introduces a causal discovery method to learn nonlinear relationships in a directed acyclic graph with correlated Gaussian errors due to confounding. First, we derive model identifiability under the sublinear growth assumption. Then, we propose a novel method, named the Deconfounded Functional Structure Estimation (DeFuSE), consisting of a deconfounding adjustment to remove the confounding effects and a sequential procedure to estimate the causal order of variables. We implement DeFuSE via feedforward neural networks for scalable computation. Moreover, we establish the consistency of DeFuSE under an assumption called the strong causal minimality. In simulations, DeFuSE compares favorably against state-of-the-art competitors that ignore confounding or nonlinearity. Finally, we demonstrate the utility and effectiveness of the proposed approach with an application to gene regulatory network analysis. The Python implementation is available at https://github.com/chunlinli/defuse.

Indexed as

DeconfoundingDirected acyclic graphGene regulatory networksNeural networksVariable selection

Identifiers

PMID39077372
PMCPMC11286219

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.