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Updated: Apr 12, 2026

Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization
Published on: October 3, 2025
Gene Expression Profiling and Pathway Network Analysis Predicts a Novel Antitumor Function for a Botanical-Derived
Yu-Lun Kuo1, Chun-Houh Chen2, Tsung-Hsien Chuang3
1Department of Computer Science and Information Engineering, National Taiwan University, No. 1, Section 4, Roosevelt Road, Taipei 10617, Taiwan.
PG2, a botanical drug rich in Astragalus polysaccharides (APS), demonstrates consistent quality and immune modulation effects. It synergizes with doxorubicin to enhance cancer cell death, revealing new therapeutic roles.
Area of Science:
- Pharmacology
- Molecular Biology
- Oncology
Background:
- PG2 is a botanical drug primarily composed of Astragalus polysaccharides (APS).
- Previous clinical studies suggest PG2's potential in hematopoiesis and alleviating cancer-related fatigue.
- Systematic analyses of PG2's biological functions remain limited.
Purpose of the Study:
- To evaluate the quality and consistency of PG2 from three different product batches using microarray-based expression profiling.
- To investigate the biological mechanisms of PG2 through an integrative molecular analysis approach.
- To identify PG2-induced gene expression signatures in HL-60 leukemia cells.
Main Methods:
- Microarray-based gene expression profiling was employed to analyze PG2.
- An integrative molecular analysis approach was used to examine PG2-induced signatures in HL-60 leukemia cells.
- Hierarchical clustering of correlation coefficients facilitated quantitative analysis of gene expression signatures.
Main Results:
- PG2 product batches exhibited high quality and consistency.
- PG2 demonstrated functional equivalence in modulating immune and hematopoietic systems across batches.
- PG2 combined with doxorubicin showed a synergistic effect on inducing cell death in HL-60 cells.
- Five genes (IL-8, MDM4, BCL2, PRODH2, BIRC5) were identified as associated with doxorubicin within the PG2 signature.
Conclusions:
- Gene expression profiling provides a quantitative measure for herbal medicine quality and consistency.
- PG2 exhibits immune modulatory roles and synergistic effects with doxorubicin in cancer treatment.
- PG2 represents a promising botanical agent for cancer therapy, particularly through immune modulation.
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