Association between drug usage time and gene expression-based pathway score in HNSCC patients Open Access

Xu, Haoling (Spring 2023)

Permanent URL: https://etd.library.emory.edu/concern/etds/vq27zp879?locale=en
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Abstract

Head and neck cancer is a complex cancer that could appear in several sites in the throat and head. However, due to the heterogeneity of cancer at the molecular level, it’s not easy to treat all HNSCC patients in the same way. In this study, we aimed to apply a newly developed method iPath to calculate an individual enrichment score of HNSCC patients based on different KEGG pathways. We related the score to patients’ drug usage time to find whether there is a significant difference between the high-score group and the low-score group. We used unpaired two-sample Wilcoxon tests and multiple test adjustments. Pathway KEGG_ARACHIDONIC_ACID_METABOLISM and pathway KEGG_LONG_TERM_DEPRESSION showed significant differences. The Kaplan-Meier analysis also indicated that KEGG_ARACHIDONIC_ACID_METABOLISM might be a prognostic biomarker pathway for head and neck squamous cell carcinoma patients who take the drug Carboplatin. 

Table of Contents

Table of Contents

1. Introduction...................................................................................................................8

2. Methods..........................................................................................................................9

2.1 Data ........................................................................................................................9

2.2 Data analysis..........................................................................................................9

2.3 Calculation of individual enrichment score .........................................................10

2.4 Statistical analysis................................................................................................10

2.5 Kaplan-Meier Analysis ........................................................................................11

3. Results..........................................................................................................................11

3.1 Visualization of individual enrichment score (iES) for KEGG pathways ...........11

3.2 Comparison in drug usage time between high score group and low score group13

3.3 Kaplan-Meier analysis of significant pathways...................................................14

4. Discussion.....................................................................................................................15

Reference .........................................................................................................................17 

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