Evidence map›Paper›PMID 40262168›Full record

ArticleJournal of chemical information and modeling2025

Augmented and Programmatically Optimized LLM Prompts Reduce Chemical Hallucinations.

Scott M Reed

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 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Predicting Functional Diversity Within Enzyme Families: A Practical Perspective.Chembiochem : a European journal of chemical biology · 2026
    Review
  2. Review
  3. Article
  4. A survey on large language models in biology and chemistry.Experimental & molecular medicine · 2026
    Review
  5. Review
  6. 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

1 author.

Scott M ReedDepartment of Chemistry, University of Colorado Denver, 1151 Arapahoe St., Denver, Colorado 80217-3364, United States.ORCID 0000-0003-2034-1999

Funding

Identifying Genetic Contributions to Adverse Drug ReactionsR15GM151726 · NIGMS · UNIVERSITY OF COLORADO DENVER · PI REED, SCOTT M · 2023 to 2023
$468k
NIGMS NIH HHS R15 GM151726
6 · The paper itself

Abstract

Utilizing large Language models (LLMs) for handling scientific information comes with risk of the outputs not matching expectations, commonly called hallucinations. To fully utilize LLMs in research requires improving their accuracy, avoiding hallucinations, and extending their scope to research topics outside their direct training. There is also a benefit to getting the most accurate information from an LLM at the time of inference without having to create and train custom new models for each application. Here, augmented generation and machine learning-driven prompt optimization are combined to extract performance improvements over base LLM function on a common chemical research task. Specifically, an LLM was used to predict the topological polar surface area (TPSA) of molecules. By using augmented generation and machine learning-optimized prompts, the error in the prediction was reduced to 11.76 root-mean-squared error (RMSE) from 62.34 RMSE with direct calls to the same LLM.

Indexed as

CheminformaticsMachine Learning

Identifiers

PMID40262168
PMCPMC12076503

What OpenQuestion holds

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LicenceCC BY-NC-ND
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 OpenQuestion graph.