Back

Simulate Scientific Reasoning with Multiple Large Language Models: An Application to Alzheimer's Disease Combinatorial Therapy

Xu, Q.; Liu, X.; Jiang, X.; Kim, Y.

2024-12-12 pharmacology and therapeutics
10.1101/2024.12.10.24318800
Show abstract

MotivationThis study aims to develop an AI-driven framework that leverages large language models (LLMs) to simulate scientific reasoning and peer review to predict efficacious combinatorial therapy when data-driven prediction is infeasible. ResultsOur proposed framework achieved a significantly higher accuracy (0.74) than traditional knowledge-based prediction (0.52). An ablation study highlighted the importance of high quality few-shot examples, external knowledge integration, self-consistency, and review within the framework. The external validation with private experimental data yielded an accuracy of 0.82, further confirming the frameworks ability to generate high-quality hypotheses in biological inference tasks. Our framework offers an automated knowledge-driven hypothesis generation approach when data-driven prediction is not a viable option. Availability and implementationOur source code and data are available at https://github.com/QidiXu96/Coated-LLM

Matching journals

The top 8 journals account for 50% of the predicted probability mass.

1
Scientific Reports
based on 701 papers
Top 2%
18.3%
2
PLOS ONE
based on 1737 papers
Top 63%
6.3%
3
Journal of Biomedical Informatics
based on 37 papers
Top 1%
5.7%
4
Clinical Pharmacology & Therapeutics
based on 19 papers
Top 0.6%
4.8%
5
Briefings in Bioinformatics
based on 11 papers
Top 0.1%
4.8%
6
Frontiers in Pharmacology
based on 27 papers
Top 0.7%
4.8%
7
Computational and Structural Biotechnology Journal
based on 14 papers
Top 0.2%
4.8%
8
Journal of Allergy and Clinical Immunology
based on 15 papers
Top 0.4%
3.0%
50% of probability mass above
9
Alzheimer's & Dementia: Translational Research & Clinical Interventions
based on 13 papers
Top 0.4%
2.6%
10
F1000Research
based on 28 papers
Top 0.8%
2.5%
11
eLife
based on 262 papers
Top 11%
2.5%
12
Nature
based on 58 papers
Top 4%
2.0%
13
Frontiers in Psychiatry
based on 56 papers
Top 4%
2.0%
14
Journal of Alzheimer’s Disease
based on 23 papers
Top 2%
1.7%
15
npj Genomic Medicine
based on 18 papers
Top 1%
1.4%
16
JMIRx Med
based on 29 papers
Top 3%
1.4%
17
Clinical and Translational Science
based on 14 papers
Top 1%
1.3%
18
Frontiers in Medicine
based on 99 papers
Top 17%
0.9%
19
British Journal of Clinical Pharmacology
based on 21 papers
Top 2%
0.9%
20
Bioinformatics
based on 24 papers
Top 1%
0.9%
21
Aging
based on 18 papers
Top 3%
0.9%
22
Computers in Biology and Medicine
based on 39 papers
Top 6%
0.9%
23
The American Journal of Human Genetics
based on 77 papers
Top 6%
0.9%
24
Nature Communications
based on 483 papers
Top 39%
0.9%
25
Journal of Medical Internet Research
based on 81 papers
Top 13%
0.9%
26
BMC Medical Informatics and Decision Making
based on 36 papers
Top 7%
0.7%
27
Frontiers in Genetics
based on 32 papers
Top 6%
0.7%
28
Epilepsia
based on 27 papers
Top 2%
0.7%
29
IEEE Journal of Biomedical and Health Informatics
based on 14 papers
Top 3%
0.7%
30
Scientific Data
based on 30 papers
Top 4%
0.7%