Evidence map›Paper›PMID 41369266›Full record

ArticleJournal of chemical information and modeling2025

Can AI-Predicted Complexes Teach Machine Learning to Compute Drug Binding Affinity?

Wei-Tse Hsu, Savva Grevtsev, Anna M Herz, Thomas Douglas, Aniket Magarkar, Philip C Biggin

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 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Review
  3. 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.

Wei-Tse HsuStructural Bioinformatics and Computational Biochemistry, Department of Biochemistry, University of Oxford, South Parks Road, Oxford, OX1 3QU, U.K.
Savva GrevtsevDepartment of Chemistry, University of Oxford, Mansfield Road, Oxford, OX1 3TA, U.K.
Anna M HerzBoehringer Ingelheim Pharma GmbH & Co. KG, Birkendorfer Str. 65, 88397 Biberach an der Riß, Germany.
Thomas DouglasStructural Bioinformatics and Computational Biochemistry, Department of Biochemistry, University of Oxford, South Parks Road, Oxford, OX1 3QU, U.K.
Aniket MagarkarBoehringer Ingelheim Pharma GmbH & Co. KG, Birkendorfer Str. 65, 88397 Biberach an der Riß, Germany.ORCID 0000-0003-3385-964X
Philip C BigginStructural Bioinformatics and Computational Biochemistry, Department of Biochemistry, University of Oxford, South Parks Road, Oxford, OX1 3QU, U.K.ORCID 0000-0001-5100-8836

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

We evaluate the feasibility of using co-folding models for synthetic data augmentation in training machine learning-based scoring functions (MLSFs) for binding affinity prediction. Our results show that performance gains depend critically on the structural quality of augmented data. In light of this, we established simple heuristics for identifying high-quality co-folding predictions without reference structures, enabling them to substitute for experimental structures in MLSF training. Our study informs future data augmentation strategies based on co-folding models.

Indexed as

Machine LearningPharmaceutical PreparationsProtein BindingPharmaceutical Preparations

Identifiers

PMID41369266
PMCPMC12728920

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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.