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Dataset . 2026
License: CC BY
Data sources: Datacite
ZENODO
Dataset . 2026
License: CC BY
Data sources: Datacite
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ReactionAtlas: Ab origine exploration of chemical reaction networks with machine learning — supplemental dataset

Authors: Gugler, Stefan; Eissler, Maximilian; Kahouli, Khaled; Mueller, Klaus-Robert;

ReactionAtlas: Ab origine exploration of chemical reaction networks with machine learning — supplemental dataset

Abstract

This dataset is the chemical reaction network (CRN) explored by the ReactionAtlas system described in the accompanying paper (see Related identifiers). Contents: 12,542 unique compounds (191 molecular formulas, C0–C4, charge −3 to +2); 33,659 potential-energy-surface minima (avg. 2.68 conformers per compound), plus per-compound conformer ensembles generated with CREST/GFN-xTB; 24,172 intramolecular (conformer-to-conformer) transition states within the per-compound PES graphs; and 47,987 elementary-reaction transition states collapsing to 21,150 unique reactions (by reactant–product identity). Each reaction includes the full ML reaction path — the transition state, both IRC relaxation trajectories, and the connected reactant/product minima — with ML energies, forces, and Hessians. Reactive TSs are refined at the PBE0/def2-TZVPP level: single-point electronic energies on the reactant, TS, and product geometries (via PySCF) yield in-box and separated DFT barriers, with D3(BJ) and D4 dispersion corrections layered on top. Where the ML-predicted TS is flagged invalid, a corrected PBE0/def2-TZVPP saddle point is re-optimised with frequency analysis (via ORCA) and its energy difference and RMSD to the ML geometry are recorded; a PBE0 Hessian on the transition state is provided for nearly all reactive TSs. Format PostgreSQL 15 database dump (plain SQL, gzip-compressed; ≈26 GB compressed, ≈70 GB restored). Restore with: createdb reaction_atlas gunzip -c reaction-atlas-*.sql.gz | psql -v ON_ERROR_STOP=1 -d reaction_atlas Geometry and Hessian columns are stored as serialized NumPy arrays in `bytea` columns (`numpy.save` for single arrays; `numpy.savez_compressed` for trajectories). A column-level schema reference and restore guide are at https://reactionatlas.bifold.berlin/downloads. The full network can be browsed at https://reactionatlas.bifold.berlin. The exploration and database code is at https://github.com/mx-e/reaction-atlas.

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
Average
Average