Evidence map›Paper›PMID 41802206›Full record

ArticleJournal of chemical information and modeling2026

CHARMM-GUI Hybrid ML/MM Builder for Hybrid Machine Learning and Molecular Mechanical Modeling and Simulations.

Florence Szczepaniak, Donghyuk Suh, Wonpil Im

Abstract read
In one paragraph

Article in Journal of chemical information and modeling, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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.

Florence SzczepaniakDepartment of Biological Sciences, Lehigh University, Bethlehem, Pennsylvania 18015, United States.
Donghyuk SuhDepartment of Biological Sciences, Lehigh University, Bethlehem, Pennsylvania 18015, United States.ORCID 0000-0002-7478-4579
Wonpil ImDepartment of Biological Sciences, Lehigh University, Bethlehem, Pennsylvania 18015, United States.ORCID 0000-0001-5642-6041

Funding

Development of Computational Tools and Their Applications to Various Biological SystemsR35GM153458 · NIGMS · LEHIGH UNIVERSITY · PI Wonpil Im · 2024 to 2026
$1.2M
NIGMS NIH HHS R35 GM153458
6 · The paper itself

Abstract

Recent advances in machine learning (ML) have enabled new developments in molecular dynamics simulation. Neural network potentials (NNPs) trained on quantum mechanical (QM) data provide highly accurate descriptions of drug-like molecules. Analogous to a QM and molecular mechanical (QM/MM) approach, hybrid ML/MM simulations employ NNPs to describe a localized region of the system, such as a ligand, while the rest of the system is treated using classical MM force fields. This hybrid framework enables simulations of protein-ligand complexes with near-QM accuracy for the ligand at a substantially reduced computational cost. CHARMM-GUI

Indexed as

Machine LearningMolecular Dynamics SimulationLigandsNeural Networks, ComputerProteinsQuantum MechanicsQuantum TheoryLigandsProteins

Identifiers

PMID41802206
PMCPMC13014446

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

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.