An automated workflow on data processing (AutoDP) for semiquantitative analysis of urine organic acids with GC-MS to facilitate diagnosis of inborn errors of metabolism

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Title:	An automated workflow on data processing (AutoDP) for semiquantitative analysis of urine organic acids with GC-MS to facilitate diagnosis of inborn errors of metabolism
Authors:	王三源 San-yuan Wang, Te-I Weng, Ju-Yu Chen, Ni-Chung Lee, Kun-Chen Lee, Mei-Ling Lai, Yin-Hsiu Chien, Wuh-Liang Hwu, Guan-Yuan Chen
Contributors:	臨床基因體學暨蛋白質體學碩士學位學程
Keywords:	Data processing;GC-MS;Inborn errors of metabolism;Automation;AutoDP
Date:	2023-01
Issue Date:	2025-03-26 15:07:17 (UTC+8)
Abstract:	Determination of urine organic acids (UOAs) is essential to understand the disease progress of inborn errors of metabolism (IEM) and often relies on GC-MS analysis. However, the efficiency of analytical reports is sometimes restricted by data processing due to labor-intensive work if no proper tool is employed. Herein, we present a simple and rapid workflow with an R-based script for automated data processing (AutoDP) of GC-MS raw files to quantitatively analyze essential UOAs. AutoDP features automatic quality checks, compound identification and confirmation with specific fragment ions, retention time correction from analytical batches, and visualization of abnormal UOAs with age-matched references on chromatograms. Compared with manual processing, AutoDP greatly reduces analytical time and increases the number of identifications. Speeding up data processing is expected to shorten the waiting time for clinical diagnosis, which could greatly benefit clinicians and patients with IEM. In addition, with quantitative results obtained from AutoDP, it would be more feasible to perform retrospective analysis of specific UOAs in IEM and could provide new perspectives for studying IEM.
Relation:	Clinica Chimica Acta; 540; 117230
Description:	【112-1 升等】臺北醫學大學教師升等專門著作職別：專任送審等級：副教授著作送審
Data Type:	article
Appears in Collections:	[Scholarly output for promotion] 112 [Master Program for Clinical Pharmacogenomics and Pharmacoproteomics] Periodical Articles

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