Next Generation Proteomics for Clinical Biomarker Detection Using SWATH-MS
| Autor: | Hwee Tong Tan, Maxey C. M. Chung, Qifeng Lin |
|---|---|
| Rok vydání: | 2019 |
| Předmět: |
0301 basic medicine
Swath ms biology Colorectal cancer business.industry Computational biology medicine.disease Proteomics Biomarker (cell) Clinical biomarker 03 medical and health sciences 030104 developmental biology 0302 clinical medicine Carcinoembryonic antigen 030220 oncology & carcinogenesis Proteome medicine biology.protein Data-independent acquisition business |
| Zdroj: | Methods in Molecular Biology ISBN: 9781493992317 |
| DOI: | 10.1007/978-1-4939-9232-4_1 |
| Popis: | The technology of "sequential windowed acquisition of all theoretical fragment ion spectra," known as SWATH-MS, is rapidly gaining popularity as a next generation proteomics technology for comprehensive proteome quantitation. In this chapter, we describe the use of SWATH-MS as a label-free quantitative technique in a proteomics study to identify novel serological biomarker for colorectal cancer. We compared the secreted glycoprotein profiles (glyco-secretomes) enriched from the colon adenocarcinoma cell line HCT-116 and its metastatic derivative, E1, and observed that laminin β-1 (LAMB1) was oversecreted in E1 cells. This novel oversecretion of LAMB1 was validated in colorectal cancer patient serum samples, and ROC analyses showed that LAMB1 performed better than carcinoembryonic antigen (CEA) as a clinical diagnostic biomarker for colorectal cancer. We focus here on the sample preparation methodology and data processing workflow for SWATH-MS studies. |
| Databáze: | OpenAIRE |
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