Evidence map›Paper›PMID 38783010›Full record

ArticleScientific reports2024

Comparing ANI-2x, ANI-1ccx neural networks, force field, and DFT methods for predicting conformational potential energy of organic molecules.

Mozafar Rezaee, Saeid Ekrami, Seyed Majid Hashemianzadeh

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In one paragraph

Article in Scientific reports, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It has been retracted, and should not be counted. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing 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

7 citing papers in PubMed.

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  2. Benchmarking pJournal of chemical information and modeling · 2026
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

3 authors.

Mozafar RezaeeMolecular Simulation Research Laboratory, Department of Chemistry, Iran University of Science and Technology, Tehran, Iran.
Saeid EkramiCNRS, LCPME, Université de Lorraine, 54000, Nancy, France.
Seyed Majid HashemianzadehMolecular Simulation Research Laboratory, Department of Chemistry, Iran University of Science and Technology, Tehran, Iran. hashemianzadeh@iust.ac.ir.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

In this study, the conformational potential energy surfaces of Amylmetacresol, Benzocaine, Dopamine, Betazole, and Betahistine molecules were scanned and analyzed using the neural network architecture ANI-2 × and ANI-1ccx, the force field method OPLS, and density functional theory with the exchange-correlation functional B3LYP and the basis set 6-31G(d). The ANI-1ccx and ANI-2 × methods demonstrated the highest accuracy in predicting torsional energy profiles, effectively capturing the minimum and maximum values of these profiles. Conformational potential energy values calculated by B3LYP and the OPLS force field method differ from those calculated by ANI-1ccx and ANI-2x, which account for non-bonded intramolecular interactions, since the B3LYP functional and OPLS force field weakly consider van der Waals and other intramolecular forces in torsional energy profiles. For a more comprehensive analysis, electronic parameters such as dipole moment, HOMO, and LUMO energies for different torsional angles were calculated at two levels of theory, B3LYP/6-31G(d) and ωB97X/6-31G(d). These calculations confirmed that ANI predictions are more accurate than density functional theory calculations with B3LYP functional and OPLS force field for determining potential energy surfaces. This research successfully addressed the challenges in determining conformational potential energy levels and shows how machine learning and deep neural networks offer a more accurate, cost-effective, and rapid alternative for predicting torsional energy profiles.

Identifiers

PMID38783010
PMCPMC11116541

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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.