Evidence map›Paper›PMID 42201801›Full record

ArticleJournal of chemical theory and computation2026

Adaptive Tensor Train Metadynamics for High-Dimensional Free Energy Exploration.

Nils E Strand, Siyao Yang, Yuehaw Khoo, Aaron R Dinner

Abstract read
In one paragraph

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

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0citing papers in PubMed
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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

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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

4 authors.

Nils E StrandJames Franck Institute, University of Chicago, Chicago, Illinois 60637, United States.
Siyao YangDepartment of Statistics, University of Chicago, Chicago, Illinois 60637, United States.
Yuehaw KhooDepartment of Statistics, University of Chicago, Chicago, Illinois 60637, United States.
Aaron R DinnerJames Franck Institute, University of Chicago, Chicago, Illinois 60637, United States.ORCID 0000-0001-8328-6427

Funding

Rare-event simulation and analysis for elucidating mechanisms of development and diseaseR35GM136381 · NIGMS · UNIVERSITY OF CHICAGO · PI Aaron Dinner · 2020 to 2026
$2.2M
NIGMS NIH HHS R35 GM136381
6 · The paper itself

Abstract

A key challenge for molecular dynamics simulations is efficient exploration of free energy landscapes over relevant collective variables (CV). Common methods for enhancing sampling become prohibitively inefficient beyond only a few CVs; in the case of the widely used metadynamics method, the computational cost of evaluating and storing the bias potential grows exponentially with the number of dimensions. Here, we introduce TT-Metadynamics, in which the accumulated sum of Gaussian functions in the original metadynamics method is periodically compressed into a low-rank tensor train (TT) representation. The TT enables efficient memory use and prevents the computational cost of evaluating the bias potential from increasing with simulation time. We present a "sketching" algorithm that allows us to construct the TT with linear scaling in the number of CVs. Applied to benchmark systems with up to 14 CVs, the accuracy of TT-Metadynamics matches or exceeds that of standard metadynamics in long simulations, particularly in systems with high barriers. These results establish TT-Metadynamics as a scalable and effective method for computing free energies that are functions of several CVs.

Identifiers

PMID42201801
PMCPMC13248443

What Socratic holds

Textmetadata
LicenceTDM
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 Socratic graph.