Evidence map›Paper›PMID 39497657›Full record

ArticleJournal of chemical information and modeling2024

ChemXTree: A Feature-Enhanced Graph Neural Network-Neural Decision Tree Framework for ADMET Prediction.

Yuzhi Xu, Xinxin Liu, Wei Xia, Jiankai Ge, Cheng-Wei Ju, Haiping Zhang, John Z H Zhang

Abstract read
In one paragraph

Article in Journal of chemical information and modeling, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Review
  2. Article
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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

7 authors.

Yuzhi XuShanghai Frontiers Science Center of Artificial Intelligence and Deep Learning and NYU-ECNU Center for Computational Chemistry, NYU Shanghai, Shanghai 200062, China.ORCID 0000-0002-3325-5427
Xinxin LiuDepartment of Computer and Information Science, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States.
Wei XiaShanghai Frontiers Science Center of Artificial Intelligence and Deep Learning and NYU-ECNU Center for Computational Chemistry, NYU Shanghai, Shanghai 200062, China.
Jiankai GeChemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.ORCID 0000-0002-7370-2797
Cheng-Wei JuPritzker School of Molecular Engineering, The University of Chicago, Chicago, Illinois 60615, United States.ORCID 0000-0002-2250-8548
Haiping ZhangFaculty of Synthetic Biology, Shenzhen Institute of Advanced Technology, Shenzhen 518055, China.ORCID 0000-0003-2133-1768
John Z H ZhangShanghai Frontiers Science Center of Artificial Intelligence and Deep Learning and NYU-ECNU Center for Computational Chemistry, NYU Shanghai, Shanghai 200062, China.ORCID 0000-0003-4612-1863

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The rapid progression of machine learning, especially deep learning (DL), has catalyzed a new era in drug discovery, introducing innovative approaches for predicting molecular properties. Despite the many methods available for feature representation, efficiently utilizing rich, high-dimensional information remains a significant challenge. Our work introduces ChemXTree, a novel graph-based model that integrates a Gate Modulation Feature Unit (GMFU) and neural decision tree (NDT) in the output layer to address this challenge. Extensive evaluations on benchmark data sets, including MoleculeNet and eight additional drug databases, have demonstrated ChemXTree's superior performance, surpassing or matching the current state-of-the-art models. Visualization techniques clearly demonstrate that ChemXTree significantly improves the separation between substrates and nonsubstrates in the latent space. In summary, ChemXTree demonstrates a promising approach for integrating advanced feature extraction with neural decision trees, offering significant improvements in predictive accuracy for drug discovery tasks and opening new avenues for optimizing molecular properties.

Indexed as

Decision TreesDrug DiscoveryNeural Networks, ComputerDeep LearningMachine Learning

Identifiers

PMID39497657
PMCPMC11600499

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Registered trials

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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.