Evidence map›Paper›PMID 39019930›Full record

ArticleNature communications2024

Learning a reactive potential for silica-water through uncertainty attribution.

Swagata Roy, Johannes P Dürholt, Thomas S Asche, Federico Zipoli, Rafael Gómez-Bombarelli

Abstract read
In one paragraph

Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing 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

8 citing papers in PubMed.

  1. Water Adsorption at Pairs of Proximate Brønsted Acid Sites in Zeolites.The journal of physical chemistry letters · 2026
    Article
  2. Article
  3. Article
  4. Article
  5. Analyzing Atomic Interactions in Molecules as Learned by Neural Networks.Journal of chemical theory and computation · 2025
    Article
  6. Spatially Resolved Uncertainties for Machine Learning Potentials.Journal of chemical information and modeling · 2024
    Article
  7. Article
  8. 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

5 authors.

Swagata RoyDepartment of Materials Science and Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.
Johannes P DürholtEvonik Operations GmbH, Essen, North Rhine-Westphalia, Germany.
Thomas S AscheEvonik Operations GmbH, Essen, North Rhine-Westphalia, Germany.ORCID http://orcid.org/0000-0003-3376-0404
Federico ZipoliIBM Research Europe, Saümerstrasse 4, 8803, Rüschlikon, Switzerland.
Rafael Gómez-BombarelliDepartment of Materials Science and Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA. rafagb@mit.edu.ORCID http://orcid.org/0000-0002-9495-8599

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The reactivity of silicates in aqueous solution is relevant to various chemistries ranging from silicate minerals in geology, to the C-S-H phase in cement, nanoporous zeolite catalysts, or highly porous precipitated silica. While simulations of chemical reactions can provide insight at the molecular level, balancing accuracy and scale in reactive simulations in the condensed phase is a challenge. Here, we demonstrate how a machine-learning reactive interatomic potential trained on PaiNN architecture can accurately capture silicate-water reactivity. The model was trained on a dataset comprising 400,000 energies and forces of molecular clusters at the ωB97X-D3/def2-TZVP level. To ensure the robustness of the model, we introduce a general active learning strategy based on the attribution of the model uncertainty, that automatically isolates uncertain regions of bulk simulations to be calculated as small-sized clusters. The potential reproduces static and dynamic properties of liquid water and solid crystalline silicates, despite having been trained exclusively on cluster data. Furthermore, we utilize enhanced sampling simulations to recover the self-ionization reactivity of water accurately, and the acidity of silicate oligomers, and lastly study the silicate dimerization reaction in a water solution at neutral conditions and find that the reaction occurs through a flanking mechanism.

Identifiers

PMID39019930
PMCPMC11254924

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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.