A. 核酸適體aptamer的篩選方法研究
進行aptamer篩選方式改良，導入自動化、修飾鹼基等方式，增加篩選效率並提升篩選結果之親和力，以創造更多應用價值。另外使用核酸的conformational switch原理，以進行小分子aptamer的篩選開發。
B. 核酸檢驗試劑開發
鑽研各項核酸放大技術，配合不同探針設計，在不同平台上開發針對癌症突變、罕見疾病及感染症的核酸檢驗。包括：
(1) 基於PCR核酸放大的檢測方法：新型PNA, TFO探針開發與應用
(2) 基於恆溫核酸放大的檢測方法：應用現今較成熟之恆溫放大技術，開發簡便實用的核酸快篩。
(3) 檢驗醫學與工程的結合：配合高靈敏度的生物感測器開發新型核酸檢驗、結合微流道技術開發Lab on a chip (與工學院的合作計畫)
C. DNA奈米科技的應用
探索核酸結構互動與行為，以核酸作為積木拼裝，組成可編程分子電路，並將其應用在科學研究與醫學檢驗上。例如 PER、HCR
A. 外泌體的收集方法與內含物研究
B. 體液檢體檢測肺癌的相關研究
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2. Chiou CC, Yang JL. (1995)Mutagenicity and specific mutation spectrum induced by 8-methoxypsoralen plus a low dose of UVA in the hprt gene in diploid human fibroblasts. Carcinogenesis, 16(6): 1357-1362
3. Shih SR, Li YS, Chiou CC, Suen PC, Lin TY, Chang LY, Huang YC, Tsao KC, Ning HC, Wu TZ, Chan EC (2000) Expression of caspid protein VP1 for use as antigen for the diagnosis of enterovirus 71 infection. J Med Virol,61(2): 228-34.
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5. Chiou CC, Chan CC, Sheu DL, Chen KT, Li YS, Chan EC (2001) Helicobacter pylori infection induced alteration of gene expression in human gastric cells. Gut, 48(5): 598-604.
6. Chiou CC, Chan CC, Kuo YP, Chan EC (2003) Helicobacter pylori inhibits activity of cdc2 kinase and delays G2/M to G1 progression in gastric adenocarcinoma cell-line. Scand J Gastroenterol, 38(2):147-52.
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10. Chiou CC*, Luo JD, Chen TL (2007) Single-tube reaction using peptide nucleic acid as both PCR clamp and sensor probe for the detection of rare mutations. Nature Protocols, 1(6):2604-12. (*Corresponding author)
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12. Chiou CC, Chen TL, Tsao KC, Shih SR, Huang CG, Huang YL, and Chang CM (2010). Detection of pandemic (H1N1) 2009 influenza virus by allele discrimination. Clinica Chimica Acta, 411:1080-1083.
13. Chiou CC*, Chen SW, Luo JD, Chien YT (2011) Monitoring triplex DNA formation with fluorescence resonance energy transfer between a fluorophore-labeled probe and intercalating dyes. Analytical Biochemistry, 416:1-7. (*Corresponding author)
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15. Li YC, Chiou CC, Luo JD, Chen WJ, Su LC, Chang YF, Chang YS, Lai CS, Lee CC, Chou C (2012) Sensitive detection of unlabeled oligonucleotides using a paired surface plasma waves biosensor. Biosensors and Bioelectronics, 35(1):342-8.
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17. Lin YH, Wang SH, Wu MH, Pan TM, Lai CS, Luo JD, Chiou CC (2013) Integrating solid-state sensor and microfluidic devices for glucose, Urea and creatinine detection based on enzyme-carrying alginate microbeads. Biosensors and Bioelectronics, 43(1): 328-335.
18. Tsao KC, Chiou CC, Chen TL, Huang CG, Hsieh EF, Shih SR.(2014) Detection of low copies of drug-resistant influenza viral gene by a single-tube reaction using peptide nucleic acid as both PCR clamp and sensor probe. J Microbiol Immunol Infect, 47:254-256.
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20. Purwidyantri A, Lai HC, Tsai SH, Luo JD, Chiou CC, Tian YC, Cheng CH, Lin YT, Lai CS. (2015) Sensing performance of fibronectin-functionalized Au-EGFET on the detection of S. epidermidis biofilm and 16S rRNA of infection-related bacteria in peritoneal dialysis. Sensors and Actuators B-Chemical, 217(1), 92-99
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35. Wei Chang, Po-Hao Chou, Cai-Tong Wu, Jheng-Da Song, Kun-Nan Tsai, Chiuan-Chian Chiou* (2024) Introducing Triplex Forming Oligonucleotide into Loop-Mediated Isothermal Amplification for Developing a Lateral Flow Biosensor for Streptococci Detection. Biosensors, 14, 257 (*Corresponding author)
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