Evidence map›Paper›PMID 38089696›Full record

ArticleArtificial intelligence chemistry2023

Predicting anti-SARS-CoV-2 activities of chemical compounds using machine learning models.

Beihong Ji, Yuhui Wu, Elena N Thomas, Jocelyn N Edwards, Xibing He, Junmei Wang

Abstract read
In one paragraph

Article in Artificial intelligence chemistry, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

6 authors.

Beihong JiDepartment of Pharmaceutical Sciences and Computational Chemical Genomics Screening Center, School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA.
Yuhui WuDepartment of Pharmaceutical Sciences and Computational Chemical Genomics Screening Center, School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA.
Elena N ThomasDepartment of Pharmaceutical Sciences and Computational Chemical Genomics Screening Center, School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA.
Jocelyn N EdwardsDepartment of Pharmaceutical Sciences and Computational Chemical Genomics Screening Center, School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA.
Xibing HeDepartment of Pharmaceutical Sciences and Computational Chemical Genomics Screening Center, School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA.
Junmei WangDepartment of Pharmaceutical Sciences and Computational Chemical Genomics Screening Center, School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA.

Funding

New Generation of General AMBER Force Field for Biomedical ResearchR01GM147673 · NIGMS · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI WANG, JUNMEI, YANG, WEI · 2022 to 2025
$1.5M
AI-Powered Biased Ligand DesignR01GM149705 · NIGMS · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI Junmei Wang · 2023 to 2026
$1.3M
NIGMS NIH HHS R01 GM147673NIGMS NIH HHS R01 GM149705
6 · The paper itself

Abstract

To accelerate the discovery of novel drug candidates for Coronavirus Disease 2019 (COVID-19) therapeutics, we reported a series of machine learning (ML)-based models to accurately predict the anti-SARS-CoV-2 activities of screening compounds. We explored 6 popular ML algorithms in combination with 15 molecular descriptors for molecular structures from 9 screening assays in the COVID-19 OpenData Portal hosted by NCATS. As a result, the models constructed by k-nearest neighbors (KNN) using the molecular descriptor GAFF+RDKit achieved the best overall performance with the highest average accuracy of 0.68 and relatively high average area under the receiver operating characteristic curve of 0.74, better than other ML algorithms. Meanwhile, The KNN model for all assays using GAFF+RDKit descriptor outperformed using other descriptors. The overall performance of our developed models was better than REDIAL-2020 (

Indexed as

Antiviral CompoundsAttentive FPCOVID-19Graph-Based Neural NetworksIn Silico ScreeningMachine LearningSHAP Analysis

Identifiers

PMID38089696
PMCPMC10715801

What OpenQuestion holds

Textmetadata
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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.