Evidence map›Paper›PMID 40512589›Full record

ArticleJournal of chemical information and modeling2025

Mathematical Framework to Identify Optimal Molecule Based on Virtual Ligand Strategy.

Wataru Matsuoka, Ken Hirose, Ren Yamada, Taihei Oki, Satoru Iwata, Satoshi Maeda

Abstract read
In one paragraph

Article in Journal of chemical information and modeling, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

6 authors.

Wataru MatsuokaInstitute for Chemical Reaction Design and Discovery (WPI-ICReDD), Hokkaido University, Kita 21, Nishi 10, Kita-ku, Sapporo, Hokkaido 001-0021, Japan.ORCID 0000-0002-8342-249X
Ken HiroseGraduate School of Chemical Sciences and Engineering, Hokkaido University, Kita 13, Nishi 8, Kita-ku, Sapporo, Hokkaido 060-8628, Japan.ORCID 0009-0009-9873-3803
Ren YamadaGraduate School of Chemical Sciences and Engineering, Hokkaido University, Kita 13, Nishi 8, Kita-ku, Sapporo, Hokkaido 060-8628, Japan.
Taihei OkiInstitute for Chemical Reaction Design and Discovery (WPI-ICReDD), Hokkaido University, Kita 21, Nishi 10, Kita-ku, Sapporo, Hokkaido 001-0021, Japan.
Satoru IwataInstitute for Chemical Reaction Design and Discovery (WPI-ICReDD), Hokkaido University, Kita 21, Nishi 10, Kita-ku, Sapporo, Hokkaido 001-0021, Japan.
Satoshi MaedaInstitute for Chemical Reaction Design and Discovery (WPI-ICReDD), Hokkaido University, Kita 21, Nishi 10, Kita-ku, Sapporo, Hokkaido 001-0021, Japan.ORCID 0000-0001-8822-1147

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Identifying molecular entities with desired properties from a vast pool of potential candidates is a fundamental challenge in organic chemistry. In particular, ligand engineering─designing optimal ligands for transition metal catalysis─has been extensively studied over the past few decades. To address this challenge, we previously proposed the virtual ligand (VL) approach, a computational method that introduces a mathematical model to approximate ligand molecules within quantum chemical calculations. This model is then optimized to identify the electronic and steric properties most suited for a given reaction. However, the interpretability of the resulting VL parameters remained elusive, limiting predictions to a qualitative level. In this study, we establish a mathematical framework that links real molecules to the VL parameters, thereby enabling rapid and quantitative prediction of optimal ligands. The prediction algorithm was validated across four different reactions, and its accuracy, limitations and potential improvements are discussed.

Indexed as

LigandsAlgorithmsQuantum TheoryLigands

Identifiers

PMID40512589
PMCPMC12264936

What OpenQuestion holds

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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.