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Updated: Jun 10, 2026

Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization
Published on: October 3, 2025
The mean does not mean as much anymore: finding sub-groups for tailored therapeutics
Stephen J Ruberg1, Lei Chen, Yanping Wang
1Eli Lilly & Company, Indianapolis, IN 46285, USA. sruberg@lilly.com
Classification trees effectively identify patient subgroups with differential treatment responses. This method aids clinicians in tailoring medical treatments to individual patient needs for improved outcomes.
Area of Science:
- Genomic medicine
- Clinical trial analysis
- Statistical modeling
Background:
- The genomics revolution is nascent, with ongoing efforts to translate biological insights into effective medicines.
- Understanding individual patient variability in drug response is crucial for public health.
- Clinical markers and socio-environmental factors influence treatment efficacy.
Purpose of the Study:
- To explore statistical complexities in clinical trial analysis for deeper insights.
- To demonstrate novel statistical methods for identifying patient subgroups with varied treatment responses.
- To showcase subgroup identification using statistical approaches.
Main Methods:
- Recursive partitioning methods were employed to identify predictor variables and their cut-off values.
- These methods defined patient subgroups exhibiting differential treatment responses.
- Validation was performed using independent clinical trial data.
Main Results:
- A classification tree, using baseline measures, identified patient subgroups with significantly better responses.
- Another classification tree, based on early treatment response, predicted long-term responders and non-responders.
- Potential for over-fitting and the need for validation were noted limitations.
Conclusions:
- Classification trees proved highly effective in identifying patient subgroups with exceptional treatment responses.
- The method is user-friendly, allowing for straightforward interpretation and implementation by clinicians.
- This approach facilitates personalized treatment strategies for individual patients.
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