專任師資

侯明宏

mhho@dragon.nchu.edu.tw (04)22840338 #7011(辦公室) #7121(實驗室) 動植物防檢疫大樓7樓701室

研究室：藥物設計及化學生物核心實驗室

簡要經歷

職稱	服務單位	起訖年月
教授	中興大學基因體暨生物資訊學研究所	2013.08–迄今
副教授	中興大學基因體暨生物資訊學研究所	2010.02– 2013.07
兼任助理教授	中興大學生物科技研究所	2008.8-2010.01
合聘助理教授	中興大學生命科學系	2008.8-2010.01
合聘助理教授	中興大學生物科技發展中心	2008.8-2010.01
助理教授	中興大學基因體暨生物資訊所	2008.08 – 2010.01
助理教授	中興大學生物科技發展中心	2007.02-2008.07
助理教授	實踐大學食品營養與保健生技學系	2004.8-2007.1
博士後研究員	中央研究院生物化學所	2003.8-2004.7
博士	國立台灣大學生化科學所	1999.09-2003.07
碩士	國立中興大學生物化學所	1997.09-1999.07

榮譽：

名稱
中興大學優秀青年教師獎(2010和 2012年) 中興大學研究績優獎 (2013年) 資深優良教師 (2014年) 特聘教授(2015年) 傑出人才發展基金會第三屆年輕學者創新獎(2015年) 104年度「傑出化學家青年獎」(2015年) 第11屆永信李天德青年醫藥科技獎(2015年) 本校108年度「優秀年輕學者懷璧獎」(2019年) 榮獲2020「國家新創獎」(2020年) 榮獲109年度科技部傑出獎(2021年)

名稱

中興大學優秀青年教師獎(2010和 2012年)
中興大學研究績優獎 (2013年)
資深優良教師 (2014年)
特聘教授(2015年)
傑出人才發展基金會第三屆年輕學者創新獎(2015年)
104年度「傑出化學家青年獎」(2015年)
第11屆永信李天德青年醫藥科技獎(2015年)
本校108年度「優秀年輕學者懷璧獎」(2019年)
榮獲2020「國家新創獎」(2020年)
榮獲109年度科技部傑出獎(2021年)

教學與研究

研究方向
蛋白質工程結構生物藥物設計生物物理

教授課程:

課程名稱
遺傳學(生科系)、生物資訊學暨實習(生科系)、蛋白質工程學(基資所)、結構生物資訊學(基資所)、生物技術特論(生技博)、應用基因體學及生物資訊學暨實習(基資所)、生物化學特論(生技博)

研究主題

實驗室研究方向
核酸結合抗癌藥物機制之探討冠狀病毒之核殼蛋白功能和結構探討抗病毒藥物開發本實驗室之研究領域主要分為兩個部份：(1) 感冒病毒(HCoV-229E、HCoV-OC43與H1N1)之核殼蛋白與核酸結合功能和結構探討；(2)抗癌藥物之研發與抗癌機制之探討，分述如下： 1. 感冒病毒之核殼蛋白與核酸結合功能和結構探討: 冠狀病毒之核殼蛋白與核酸結合功能和結構之探討自從2002年冬到2003年春，SARS冠狀病毒肆虐全球，並造成嚴重急性呼吸道症候群(Severe Acute Respiratory Syndrome，SARS)，此時全世界再次興起冠狀病毒的研究風潮。依照血清學分析，人類冠狀病毒229E及OC43分屬於冠狀病毒之第一群組和第二群組，此二種病毒主要會引起人類急性上呼吸道感染，為一般人類普通感冒之主要致病原。人類冠狀病毒229E及OC43之核殼蛋白(nucleocapsid protein)為病毒主要結構蛋白之一，為一個高電荷、高親水性的鹼性蛋白質。此種蛋白的主要功能是與病毒RNA結合，並形成螺旋狀的核殼結構(nucleocapsid structure)，進一步組成核醣核殼蛋白複合體(ribonucleoprotein，RNP)而形成病毒的核心，使病毒RNA在恆定的構形下進行複製與轉錄。截至目前為止，還沒有任何文獻是針對人類冠狀病毒229E和OC43核殼蛋白之生物化學及生物物理的特性來進行研究。經過序列比對後發現，冠狀病毒之核殼蛋白雖具有些許保留端，但彼此間的相似性卻不高，因此推測冠狀病毒核殼蛋白之生物化學及生物物理的特性也會有所不同。本實驗室主要是針對人類冠狀病毒229E和OC43核殼蛋白之生物化學、生物物理及免疫學的特性進行一些重要的研究，計劃的結果也將會對於藥物、疫苗及診斷方法的開發有相當大的幫助。 A型流感病毒H1N1核殼蛋白之穩定性及其核酸結合功能與結構之探討流感病毒在分類學上屬於正黏液病毒科(Orthomyxoviridae)，分為A、B、C三型。其中人類常見的A型流感病毒有西班牙流感(H1N1)、亞洲流感(H2N2)與香港流感(H3N2)，本實驗室以A型流感病毒H1N1作為研究的病毒株，來了解其核殼蛋白之特性。H1N1核殼蛋白(nucleoprotein)分子量為56kDa，會結合到病毒的genome RNA，從ribonucleoprotein(RNP)複合物起約間隔20個nucleotides。流感病毒之核殼蛋白主要的功能是包裹病毒的核酸，並且在病毒的增生的過程中扮演調節的角色，其中包括複製(replication)、轉錄(transcription)、包裝(packaging)與病毒的成熟(maturation)。此外，核殼蛋白也會與感染細胞的蛋白產生交互作用，包括actin、nuclear import components、export apparatus與nuclear RNA helicase。本實驗室主要針對H1N1核殼蛋白進行生物化學與生物物理方面之相關研究，以解開其結構與功能的奧秘。
2. 核酸結合之抗癌藥物研發與抗癌機制探討: 本研究題目主要是以抗癌藥與目標物的結合機制及其在癌症疾病的治療作一系列的探討。抗生素Mithramycin 和Chromomycin A3 是一種鍵結於DNA的aureolic 類抗癌藥物。其活性主要來自於干擾DNA的複製及轉錄作用，並運用於臨床的癌症治療上。此類藥物藉由單一的二價金屬離子鍵結於富含G/C的DNA雙螺旋序列組成的次溝(minor groove)上，而明顯使次溝變得比先前寬闊。在之前的研究證實，當沒有DNA的情況下，二價金屬離子可以形成金屬離子aureolic 類藥物聚合體。現今有許多的抗癌藥物會利用金屬離子所結合行成的複合物而導致癌細胞的死亡，可以增加其應用在人類惡性腫瘤治療的潛力。因此本計劃我們將研究aureolic類抗癌藥物與其他不同金屬離子構成複合物的能力(結合力和相對配位)，並且評估此類聚合物的生化功能、抑制topoisomerase I及細胞毒性。

實驗室研究方向

核酸結合抗癌藥物機制之探討冠狀病毒之核殼蛋白功能和結構探討抗病毒藥物開發本實驗室之研究領域主要分為兩個部份：(1) 感冒病毒(HCoV-229E、HCoV-OC43與H1N1)之核殼蛋白與核酸結合功能和結構探討；(2)抗癌藥物之研發與抗癌機制之探討，分述如下：

1. 感冒病毒之核殼蛋白與核酸結合功能和結構探討:

冠狀病毒之核殼蛋白與核酸結合功能和結構之探討

自從2002年冬到2003年春，SARS冠狀病毒肆虐全球，並造成嚴重急性呼吸道症候群(Severe Acute Respiratory Syndrome，SARS)，此時全世界再次興起冠狀病毒的研究風潮。依照血清學分析，人類冠狀病毒229E及OC43分屬於冠狀病毒之第一群組和第二群組，此二種病毒主要會引起人類急性上呼吸道感染，為一般人類普通感冒之主要致病原。人類冠狀病毒229E及OC43之核殼蛋白(nucleocapsid protein)為病毒主要結構蛋白之一，為一個高電荷、高親水性的鹼性蛋白質。此種蛋白的主要功能是與病毒RNA結合，並形成螺旋狀的核殼結構(nucleocapsid structure)，進一步組成核醣核殼蛋白複合體(ribonucleoprotein，RNP)而形成病毒的核心，使病毒RNA在恆定的構形下進行複製與轉錄。截至目前為止，還沒有任何文獻是針對人類冠狀病毒229E和OC43核殼蛋白之生物化學及生物物理的特性來進行研究。經過序列比對後發現，冠狀病毒之核殼蛋白雖具有些許保留端，但彼此間的相似性卻不高，因此推測冠狀病毒核殼蛋白之生物化學及生物物理的特性也會有所不同。本實驗室主要是針對人類冠狀病毒229E和OC43核殼蛋白之生物化學、生物物理及免疫學的特性進行一些重要的研究，計劃的結果也將會對於藥物、疫苗及診斷方法的開發有相當大的幫助。

A型流感病毒H1N1核殼蛋白之穩定性及其核酸結合功能與結構之探討

流感病毒在分類學上屬於正黏液病毒科(Orthomyxoviridae)，分為A、B、C三型。其中人類常見的A型流感病毒有西班牙流感(H1N1)、亞洲流感(H2N2)與香港流感(H3N2)，本實驗室以A型流感病毒H1N1作為研究的病毒株，來了解其核殼蛋白之特性。H1N1核殼蛋白(nucleoprotein)分子量為56kDa，會結合到病毒的genome RNA，從ribonucleoprotein(RNP)複合物起約間隔20個nucleotides。流感病毒之核殼蛋白主要的功能是包裹病毒的核酸，並且在病毒的增生的過程中扮演調節的角色，其中包括複製(replication)、轉錄(transcription)、包裝(packaging)與病毒的成熟(maturation)。此外，核殼蛋白也會與感染細胞的蛋白產生交互作用，包括actin、nuclear import components、export apparatus與nuclear RNA helicase。本實驗室主要針對H1N1核殼蛋白進行生物化學與生物物理方面之相關研究，以解開其結構與功能的奧秘。

2. 核酸結合之抗癌藥物研發與抗癌機制探討:

本研究題目主要是以抗癌藥與目標物的結合機制及其在癌症疾病的治療作一系列的探討。抗生素Mithramycin 和Chromomycin A3 是一種鍵結於DNA的aureolic 類抗癌藥物。其活性主要來自於干擾DNA的複製及轉錄作用，並運用於臨床的癌症治療上。此類藥物藉由單一的二價金屬離子鍵結於富含G/C的DNA雙螺旋序列組成的次溝(minor groove)上，而明顯使次溝變得比先前寬闊。在之前的研究證實，當沒有DNA的情況下，二價金屬離子可以形成金屬離子aureolic 類藥物聚合體。現今有許多的抗癌藥物會利用金屬離子所結合行成的複合物而導致癌細胞的死亡，可以增加其應用在人類惡性腫瘤治療的潛力。因此本計劃我們將研究aureolic類抗癌藥物與其他不同金屬離子構成複合物的能力(結合力和相對配位)，並且評估此類聚合物的生化功能、抑制topoisomerase I及細胞毒性。

著作

期刊論文(*Corresponding author)
Ching-Ming Chien, Pei-Ching Wu, Roshan Satange, Cheng-Chun Chang, ZI-Lun Lai, Lauren D. Hagler, Steven C. Zimmerman, and Ming-Hon Hou. (June 2020) Structural basis for targeting T:T mismatch with triaminotriazine-acridine conjugate induces a U-shaped head-to-head four-way junction in CTG repeat DNA. Journal of the American Chemical Society Shan-Meng Lin, Shih-Chao Lin, Jia-Ning Hsu, Chung-ke Chang, Ching-Ming Chien, Yong-Sheng Wang, Hung-Yi Wu, U-Ser Jeng, Kylene Kehn-Hall and Ming-Hon Hou. (Feb 2020) Structure-based stabilization of non-native protein-protein interactions of coronavirus nucleocapsid proteins in antiviral drug design. Journal of Medicinal Chemistry Jyung-Hurng Liu, Jun-Yi Yang, Duen-Wei Hsu, Yi-Hua Lai, Yun-Pei Li, Yi-Rung Tsai, and Ming-Hon Hou. (Oct 2019) Crystal Structure-Based Exploration of Arginine-Containing Peptide Binding in the ADP-Ribosyltransferase Domain of the Type III Effector XopAI Protein. International Journal of Molecular Sciences Roshan Satange, Chien-Ying Chuang, Stephen Neidle and Ming-Hon Hou. (Jul 2019) Polymorphic G:G mismatches act as hotspots for inducing right-handed Z DNA by DNA intercalation. Nucleic Acids Research Chen YW; Satange R; Wu PC; Jhan CR; Chang CK; Chung KR; Waring MJ; Lin SW; Hsieh LC; Hou MH.(2018) CoII(Chromomycin)2 complex induces a conformational change of CCG repeats from i-Motif to base-extruded DNA duplex. International Journal of Molecular Sciences Wu PC, Tzeng SL, Chang CK, Kao YF, Waring MJ, Hou MH. (2018) Cooperative recognition of T:T mismatch by echinomycin causes structural distortions in DNA duplex Nucleic Acids Research Satange R; Chang CK; Hou, MH. (2018) A survey of recent unusual high-resolution DNA structures provoked by mismatches, repeats and ligand binding. Nucleic acids research Liu CH, Chen YT, Hou MH, Hu NJ, Chen CS, Shaw JF. (2018) Crystallographic analysis of the Staphylococcus epidermidis lipase involved in esterification in aqueous solution. Acta Crystallographica Section F-Structural Biology Communications Huang TY; Chang CK; Kao YF; Chin CH; Ni CW; Hsu HY; Hu NJ; Hsieh LC; Chou SH; Lee IR; Hou MH. (2017) Parity-dependent hairpin configurations of repetitive DNA sequence promote slippage associated with DNA expansion. Proceedings of the National Academy of Sciences of the United States of America Tseng WH; Chang CK; Wu PC; Hu NJ; Lee GH; Tzeng CC; Neidle S; Hou MH. (2017) Induced-fit recognition of CCG trinucleotide repeats by a nickel chromomycin complex results in large-scale DNA deformation. Angewandte Chemie-International Edition Lin YH; Chuang SM; Wu PC; Chen CL; Jeyachandran S; Lo SC; Huang HS; Hou MH. (2016) Selective recognition and stabilization of new ligands targeting the potassium form of the human telomeric G-quadruplex DNA. Scientific Reports Liu CL; Hung HC; Lo SC; Chiang CH; Chen IJ; Hsu JT; Hou MH. (2016) Using mutagenesis to explore conserved residues in the RNA-binding groove of influenza A virus nucleoprotein for antiviral drug development. Scientific Reports Hou MH; Chuang CY; Ko TP; Hu NJ; Chou CC; Shih YP; Ho CL; Wang AH. (2016) Crystal structure of vespid phospholipase A(1) reveals insights into the mechanism for cause of membrane dysfunction. Insect Biochemistry And Molecular Biology Chang CK; Jeyachandran S; Hu NJ; Liu CL; Lin SY; Wang YS; Chang YM; Hou MH. (2016) Structure-based virtual screening and experimental validation of the discovery of inhibitors targeted towards the human coronavirus nucleocapsid protein. Molecular Biosystems Wang YS; Chang CK; Hou MH. (2015) Crystallographic analysis of the N-terminal domain of Middle East respiratory syndrome coronavirus nucleocapsid protein. Acta Crystallographica Section F-Structural Biology Communications Lin, S.Y., Liu, C.L., Chang, Y.M., Zhao, J., Perlman, S. and Hou,M.H.(2014) Structural basis for the identification of the N-terminal domain of coronavirus nucleocapsid protein as an antiviral target. Journal of medicinal chemistry, 57, 2247-2257. Chang, C.K., Hou, M.H., Chang, C.F., Hsiao, C.D. and Hou,M.H.(2014) The SARS coronavirus nucleocapsid protein–forms and functions. Antiviral research, 103, 39-50. Chen, I.J., Yuann, J.M., Chang, Y.M., Lin, S.Y., Zhao, J., Perlman, S., Shen, Y.Y., Huang, T.H. and Hou,M.H.(2013) Crystal structure-based exploration of the important role of Arg106 in the RNA-binding domain of human coronavirus OC43 nucleocapsid protein. Biochimica et biophysica acta, 1834, 1054-1062. Lo, Y.S., Tseng, W.H., Chuang, C.Y. and Hou,M.H.(2013). The structural basis of actinomycin D-binding induces nucleotide flipping out, a sharp bend and a left-handed twist in CGG triplet repeats. Nucleic Acids Res 41, 4284-94. Chen, Y.W. and Hou,M.H.(2013) The binding of the Co(II) complex of dimeric chromomycin A3 to GC sites with flanking G:G mismatches. Journal of inorganic biochemistry, 121, 28-36. Lo, Y.S., Lin, S.Y., Wang, S.M., Wang, C.T., Chiu, Y.L., Huang, T.H. and Hou,M.H.(2013). Oligomerization of the carboxyl terminal domain of the human coronavirus 229E nucleocapsid protein. FEBS Lett 587, 120-7. Liang, F.Y., Lin, L.C., Ying, T.H., Yao, C.W., Tang, T.K., Chen, Y.W. and Hou,M.H.(2013). Immunoreactivity characterisation of the three structural regions of the human coronavirus OC43 nucleocapsid protein by Western blot: implications for the diagnosis of coronavirus infection. J Virol Methods 187, 413-20. Kuo, S.M., Kao, H.W., Hou,M.H., Wang, C.H., Lin, S.H. and Su, H.L. (2013). Evolution of infectious bronchitis virus in Taiwan: positively selected sites in the nucleocapsid protein and their effects on RNA-binding activity. Vet Microbiol 162, 408-18. Hsu, C.W., Kuo, C.F., Chuang, S.M. and Hou,M.H.(2013). Elucidation of the DNA-interacting properties and anticancer activity of a Ni(II)-coordinated mithramycin dimer complex. Biometals 26, 1-12. Chen, Y.W. and Hou,M.H.(2013). The binding of the Co(II) complex of dimeric chromomycin A3 to GC sites with flanking G:G mismatches. J Inorg Biochem 121, 28-36. Yuann, J.M., Tseng, W.H., Lin, H.Y. and Hou,M.H.(2012). The effects of loop size on Sac7d-hairpin DNA interactions. Biochim Biophys Acta 1824, 1009-15. Wu, M.R.,Hou,M.H., Lin, Y.L. and Kuo, C.F. (2012). 2,4,5-TMBA, a natural inhibitor of cyclooxygenase-2, suppresses adipogenesis and promotes lipolysis in 3T3-L1 adipocytes. J Agric Food Chem 60, 7262-9. Wang, S.Y. et al. (2012). Spermine attenuates the action of the DNA intercalator, actinomycin D, on DNA binding and the inhibition of transcription and DNA replication. PLoS One 7, e47101. Hung, H.C. et al. (2012). Development of an anti-influenza drug screening assay targeting nucleoproteins with tryptophan fluorescence quenching. Anal Chem 84, 6391-9. Hsu, C.W., Chuang, S.M., Wu, W.L. and Hou,M.H. (2012). The crucial role of divalent metal ions in the DNA-acting efficacy and inhibition of the transcription of dimeric chromomycin A3. PLoS One 7, e43792. Chang, Y.M., Chen, C.K. and Hou,M.H.(2012). Conformational Changes in DNA upon Ligand Binding Monitored by Circular Dichroism. Int J Mol (SCI)* 13, 3394-413. Chang, Y.M., Chen, C.K., Chang, Y.C., Jeng, W.Y.,Hou,M.H. and Wang, A.H. (2012). Functional studies of ssDNA binding ability of MarR family protein TcaR from Staphylococcus epidermidis. PLoS One 7, e45665. Kuo, S.M., Wang, C.H.,Hou,M.H., Huang, Y.P., Kao, H.W. and Su, H.L. (2010). Evolution of infectious bronchitis virus in Taiwan: characterisation of RNA recombination in the nucleocapsid gene. Vet Microbiol 144, 293-302. Chen, I.J., Chou, C.C., Liu, C.L., Lee, C.C., Kan, L.S. and Hou,M.H.(2010). Crystallization and preliminary X-ray diffraction analysis of the N-terminal domain of human coronavirus OC43 nucleocapsid protein. Acta Crystallogr Sect F Struct Biol Cryst Commun 66, 815-8. Lu, W.J., Wang, H.M., Yuann, J.M., Huang, C.Y. andHou, M.H.(2009). The impact of spermine competition on the efficacy of DNA-binding Fe(II), Co(II), and Cu(II) complexes of dimeric chromomycin A(3). J Inorg Biochem 103, 1626-33.> Huang, C.Y., Hsu, Y.L., Chiang, W.L. and Hou, M.H.(2009). Elucidation of the stability and functional regions of the human coronavirus OC43 nucleocapsid protein. Protein (SCI) 18, 2209-18. Hou, M.H., Lu, W.J., Lin, H.Y. and Yuann J.M. (2008) Studies of sequence-specific DNA binding, DNA cleavage, and topoisomerase I Inhibition by the dimeric chromomycin A3 complexed with Fe(II). Biochemistry., 47, 5493-5502. Tang, T.K., Wu, P.J., Chen, S.T., Hou, M.H., Hong, M.H., Pan, F.M., Yu, H.M., Chen, J.H., Yao, C.W. and Wang, A.H.-J. (2005) Biochemical and immunological studies of nucleocapsid proteins of severe acute respiratory and 229E human coronaviruses.. Proteomics 5,925-37. Hou, M.H. and Wang A.H.-J. (2005) Mithramycin forms a stable dimeric complex by chelating with Fe(II): DNA-interacting characteristics, cellular permeation and cytotoxicity. Nucleic Acids Res. 33,1352-61 Hou, M.H., Robinson H., Gao Y.G. and Wang A.H.-J. (2004) Crystal structure of the Mg2+-(chromomycin A3)2-d(TTGGCCAA)2 complex reveals GGCC binding specificity of the drug dimer chelated by metal ion. Nucleic Acids Res, 32, 2214-2222. (Featured on Cover) Hou, M.H., Robinson H., Gao Y.G. and Wang A.H.-J. (2002). Crystal structure of actinomycin D bound to the CTG triplet repeat sequences linked to neurological diseases. Nucleic Acids Res., 30, 4910-4917. (Featured on Cover) Hou, M.H., Lin, S.B., Yuann J.M., Lin W.C., Wang A.H.-J. and Kan L.S. (2001) Effects of polyamines on the thermal stability and formation kinetics of DNA duplexes with abnormal structure. Nucleic Acids Res., 29, 5121-5128.

期刊論文(*Corresponding author)

1. Ching-Ming Chien, Pei-Ching Wu, Roshan Satange, Cheng-Chun Chang, ZI-Lun Lai, Lauren D. Hagler, Steven C. Zimmerman, and Ming-Hon Hou*. (June 2020) Structural basis for targeting T:T mismatch with triaminotriazine-acridine conjugate induces a U-shaped head-to-head four-way junction in CTG repeat DNA. Journal of the American Chemical Society
2. Shan-Meng Lin, Shih-Chao Lin, Jia-Ning Hsu, Chung-ke Chang, Ching-Ming Chien, Yong-Sheng Wang, Hung-Yi Wu, U-Ser Jeng, Kylene Kehn-Hall and Ming-Hon Hou*. (Feb 2020) Structure-based stabilization of non-native protein-protein interactions of coronavirus nucleocapsid proteins in antiviral drug design. Journal of Medicinal Chemistry
3. Jyung-Hurng Liu*, Jun-Yi Yang, Duen-Wei Hsu, Yi-Hua Lai, Yun-Pei Li, Yi-Rung Tsai, and Ming-Hon Hou. (Oct 2019) Crystal Structure-Based Exploration of Arginine-Containing Peptide Binding in the ADP-Ribosyltransferase Domain of the Type III Effector XopAI Protein. International Journal of Molecular Sciences
4. Roshan Satange, Chien-Ying Chuang, Stephen Neidle and Ming-Hon Hou*. (Jul 2019) Polymorphic G:G mismatches act as hotspots for inducing right-handed Z DNA by DNA intercalation. Nucleic Acids Research
5. Chen YW; Satange R; Wu PC; Jhan CR; Chang CK; Chung KR; Waring MJ; Lin SW; Hsieh LC; Hou MH*.(2018) CoII(Chromomycin)2 complex induces a conformational change of CCG repeats from i-Motif to base-extruded DNA duplex. International Journal of Molecular Sciences
6. Wu PC, Tzeng SL, Chang CK, Kao YF, Waring MJ, Hou MH*. (2018) Cooperative recognition of T:T mismatch by echinomycin causes structural distortions in DNA duplex Nucleic Acids Research
7. Satange R; Chang CK; Hou, MH*. (2018) A survey of recent unusual high-resolution DNA structures provoked by mismatches, repeats and ligand binding. Nucleic acids research
8. Liu CH, Chen YT, Hou MH, Hu NJ, Chen CS, Shaw JF. (2018) Crystallographic analysis of the Staphylococcus epidermidis lipase involved in esterification in aqueous solution. Acta Crystallographica Section F-Structural Biology Communications
9. Huang TY; Chang CK; Kao YF; Chin CH; Ni CW; Hsu HY; Hu NJ; Hsieh LC; Chou SH; Lee IR; Hou MH*. (2017) Parity-dependent hairpin configurations of repetitive DNA sequence promote slippage associated with DNA expansion. Proceedings of the National Academy of Sciences of the United States of America
10. Tseng WH; Chang CK; Wu PC; Hu NJ; Lee GH; Tzeng CC; Neidle S; Hou MH*. (2017) Induced-fit recognition of CCG trinucleotide repeats by a nickel chromomycin complex results in large-scale DNA deformation. Angewandte Chemie-International Edition
11. Lin YH; Chuang SM; Wu PC; Chen CL; Jeyachandran S; Lo SC; Huang HS; Hou MH*. (2016) Selective recognition and stabilization of new ligands targeting the potassium form of the human telomeric G-quadruplex DNA. Scientific Reports
12. Liu CL; Hung HC; Lo SC; Chiang CH; Chen IJ; Hsu JT; Hou MH*. (2016) Using mutagenesis to explore conserved residues in the RNA-binding groove of influenza A virus nucleoprotein for antiviral drug development. Scientific Reports
13. Hou MH; Chuang CY; Ko TP; Hu NJ; Chou CC; Shih YP; Ho CL; Wang AH. (2016) Crystal structure of vespid phospholipase A(1) reveals insights into the mechanism for cause of membrane dysfunction. Insect Biochemistry And Molecular Biology
14. Chang CK; Jeyachandran S; Hu NJ; Liu CL; Lin SY; Wang YS; Chang YM; Hou MH*. (2016) Structure-based virtual screening and experimental validation of the discovery of inhibitors targeted towards the human coronavirus nucleocapsid protein. Molecular Biosystems
15. Wang YS; Chang CK; Hou MH*. (2015) Crystallographic analysis of the N-terminal domain of Middle East respiratory syndrome coronavirus nucleocapsid protein. Acta Crystallographica Section F-Structural Biology Communications
16. Lin, S.Y., Liu, C.L., Chang, Y.M., Zhao, J., Perlman, S. and Hou,M.H.(2014) Structural basis for the identification of the N-terminal domain of coronavirus nucleocapsid protein as an antiviral target. Journal of medicinal chemistry, 57, 2247-2257.
17. Chang, C.K., Hou, M.H., Chang, C.F., Hsiao, C.D. and Hou,M.H.(2014) The SARS coronavirus nucleocapsid protein–forms and functions. Antiviral research, 103, 39-50.
18. Chen, I.J., Yuann, J.M., Chang, Y.M., Lin, S.Y., Zhao, J., Perlman, S., Shen, Y.Y., Huang, T.H. and Hou,M.H.(2013) Crystal structure-based exploration of the important role of Arg106 in the RNA-binding domain of human coronavirus OC43 nucleocapsid protein. Biochimica et biophysica acta, 1834, 1054-1062.
19. Lo, Y.S., Tseng, W.H., Chuang, C.Y. and Hou,M.H.(2013). The structural basis of actinomycin D-binding induces nucleotide flipping out, a sharp bend and a left-handed twist in CGG triplet repeats. Nucleic Acids Res 41, 4284-94.
20. Chen, Y.W. and Hou,M.H.(2013) The binding of the Co(II) complex of dimeric chromomycin A3 to GC sites with flanking G:G mismatches. Journal of inorganic biochemistry, 121, 28-36.
21. Lo, Y.S., Lin, S.Y., Wang, S.M., Wang, C.T., Chiu, Y.L., Huang, T.H. and Hou,M.H.(2013). Oligomerization of the carboxyl terminal domain of the human coronavirus 229E nucleocapsid protein. FEBS Lett 587, 120-7.
22. Liang, F.Y., Lin, L.C., Ying, T.H., Yao, C.W., Tang, T.K., Chen, Y.W. and Hou,M.H.(2013). Immunoreactivity characterisation of the three structural regions of the human coronavirus OC43 nucleocapsid protein by Western blot: implications for the diagnosis of coronavirus infection. J Virol Methods 187, 413-20.
23. Kuo, S.M., Kao, H.W., Hou,M.H., Wang, C.H., Lin, S.H. and Su, H.L. (2013). Evolution of infectious bronchitis virus in Taiwan: positively selected sites in the nucleocapsid protein and their effects on RNA-binding activity. Vet Microbiol 162, 408-18.
24. Hsu, C.W., Kuo, C.F., Chuang, S.M. and Hou,M.H.(2013). Elucidation of the DNA-interacting properties and anticancer activity of a Ni(II)-coordinated mithramycin dimer complex. Biometals 26, 1-12.
25. Chen, Y.W. and Hou,M.H.(2013). The binding of the Co(II) complex of dimeric chromomycin A3 to GC sites with flanking G:G mismatches. J Inorg Biochem 121, 28-36.
26. Yuann, J.M., Tseng, W.H., Lin, H.Y. and Hou,M.H.(2012). The effects of loop size on Sac7d-hairpin DNA interactions. Biochim Biophys Acta 1824, 1009-15.
27. Wu, M.R.,Hou,M.H., Lin, Y.L. and Kuo, C.F. (2012). 2,4,5-TMBA, a natural inhibitor of cyclooxygenase-2, suppresses adipogenesis and promotes lipolysis in 3T3-L1 adipocytes. J Agric Food Chem 60, 7262-9.
28. Wang, S.Y. et al. (2012). Spermine attenuates the action of the DNA intercalator, actinomycin D, on DNA binding and the inhibition of transcription and DNA replication. PLoS One 7, e47101.
29. Hung, H.C. et al. (2012). Development of an anti-influenza drug screening assay targeting nucleoproteins with tryptophan fluorescence quenching. Anal Chem 84, 6391-9.
30. Hsu, C.W., Chuang, S.M., Wu, W.L. and Hou,M.H. (2012). The crucial role of divalent metal ions in the DNA-acting efficacy and inhibition of the transcription of dimeric chromomycin A3. PLoS One 7, e43792.
31. Chang, Y.M., Chen, C.K. and Hou,M.H.(2012). Conformational Changes in DNA upon Ligand Binding Monitored by Circular Dichroism. Int J Mol (SCI)

13, 3394-413.

Chang, Y.M., Chen, C.K., Chang, Y.C., Jeng, W.Y.,Hou,M.H. and Wang, A.H. (2012). Functional studies of ssDNA binding ability of MarR family protein TcaR from Staphylococcus epidermidis. PLoS One 7, e45665.
Kuo, S.M., Wang, C.H.,Hou,M.H., Huang, Y.P., Kao, H.W. and Su, H.L. (2010). Evolution of infectious bronchitis virus in Taiwan: characterisation of RNA recombination in the nucleocapsid gene. Vet Microbiol 144, 293-302.
Chen, I.J., Chou, C.C., Liu, C.L., Lee, C.C., Kan, L.S. and Hou,M.H.(2010). Crystallization and preliminary X-ray diffraction analysis of the N-terminal domain of human coronavirus OC43 nucleocapsid protein. Acta Crystallogr Sect F Struct Biol Cryst Commun 66, 815-8.
Lu, W.J., Wang, H.M., Yuann, J.M., Huang, C.Y. andHou, M.H.(2009). The impact of spermine competition on the efficacy of DNA-binding Fe(II), Co(II), and Cu(II) complexes of dimeric chromomycin A(3). J Inorg Biochem 103, 1626-33.>
Huang, C.Y., Hsu, Y.L., Chiang, W.L. and Hou, M.H.(2009). Elucidation of the stability and functional regions of the human coronavirus OC43 nucleocapsid protein. Protein (SCI)

18, 2209-18.

Hou, M.H., Lu, W.J., Lin, H.Y. and Yuann J.M. (2008) Studies of sequence-specific DNA binding, DNA cleavage, and topoisomerase I Inhibition by the dimeric chromomycin A3 complexed with Fe(II). Biochemistry., 47, 5493-5502.
Tang, T.K., Wu, P.J., Chen, S.T., Hou, M.H., Hong, M.H., Pan, F.M., Yu, H.M., Chen, J.H., Yao, C.W. and Wang, A.H.-J. (2005) Biochemical and immunological studies of nucleocapsid proteins of severe acute respiratory and 229E human coronaviruses.. Proteomics 5,925-37.
Hou, M.H. and Wang A.H.-J. (2005) Mithramycin forms a stable dimeric complex by chelating with Fe(II): DNA-interacting characteristics, cellular permeation and cytotoxicity. Nucleic Acids Res. 33,1352-61
Hou, M.H., Robinson H., Gao Y.G. and Wang A.H.-J. (2004) Crystal structure of the Mg2+-(chromomycin A3)2-d(TTGGCCAA)2 complex reveals GGCC binding specificity of the drug dimer chelated by metal ion. Nucleic Acids Res, 32, 2214-2222. (Featured on Cover)
Hou, M.H., Robinson H., Gao Y.G. and Wang A.H.-J. (2002). Crystal structure of actinomycin D bound to the CTG triplet repeat sequences linked to neurological diseases. Nucleic Acids Res., 30, 4910-4917. (Featured on Cover)
Hou, M.H., Lin, S.B., Yuann J.M., Lin W.C., Wang A.H.-J. and Kan L.S. (2001) Effects of polyamines on the thermal stability and formation kinetics of DNA duplexes with abnormal structure. Nucleic Acids Res., 29, 5121-5128.

研討會論文 (*Invited speaker)
Roshan Satange and Ming-Hon Hou(2018, May) Synergistic intercalation of echinomycin and actinomycin D to DNA duplex with T:T mismatch causes single strand deformation. pp.104(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan Yun-Jean Lin and Ming-Hon Hou(2018, May) Structural study of the specific interactions between echinomycin and methylated DNA containing the CCG motif .pp.103(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan Hsiang-Ti Huang and Ming-Hon Hou(2018, May) Structural basis for the binding of Echinomycin to DNA duplex containing I:C mismatch. pp.91(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan Pei-Ching Wu, Shu-Ling Tzeng, Chung-ke Chang, Ya-Fen Kao, Michael J. Waring and Ming-Hon Hou (2018, May) Cooperative recognition of T:T mismatch by echinomycin causes structural distortions in DNA duplex. pp.106(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan Ching-Ming Chien, Jia-Ning Hsu and Ming-Hon Hou* (2018, May) Homology Modeling and Crystallization of N-terminal domain of Porcine Epidemic Diarrhea Virus Nucleocapsid Protein. pp.90(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung,Taiwan Jing-Yi Zeng, Tzu-Jung Huang and Ming-Hon Hou* (2018, May) The terminal base pairs determine the conformation of DNA duplex with G:T mismatch. pp.117(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan Ming-Hon Hou (2018, May) Binding of small molecules to trinucleotide DNA repeats associated with fragile X syndrome. pp.34(Oral). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan Hou, MH; Hsu, CN (Dec, 2017) Structural basis for identification of the interface of the N-terminal domain of CoV N protein dimer as a target for drug development. pp. 196 (Abstract POS501). In: the 31st Annual Symposium ofThe Protein Society, 2017 July 24–27, Montreal, Canada. Lin, S.Y., Liu, C.L., Chang, Y.M., and Hou, M.H.(2012, Dec). Probing the N-terminal domain of coronavirus nucleocapsid protein as a potent target for antiviral drug development.. 2012 Taiwan Society for Biochemistry and Molecular Biology. Lin, Y.H., Chen, C.L., Huang, H.S., and Hou, M.H. (2012, Dec). The study of anthrax[1, 2-d] imidazole-6,11-dione derivatives bound to the potassium form of human telomere G-quadruplex.. 2012 Taiwan Society for Biochemistry and Molecular Biology. Chen, Y.W., andHou, M.H.* (2012, Dec). The binding of the Co(II) complex of dimeric chromomycin A3 to GC sites with flanking G:G mismatches.. 2012 Taiwan Society for Biochemistry and Molecular Biology. Tseng, W. H., Yuann, J. M., Lin, H. Y., and Hou, M.H.(2012). The effects of loop size on Sac7d-hairpin DNA interactions.. 17th Joint International Conference of Biophysics and Annual Conference of the Biophsical Society of ROC. Hou, M.H.., Liu, C.L., Chen, I.J. and Chou, C.C. (2011). Identification of the N-terminal domain of human coronaviral nucleocapsid protein as a potential antiviral target. The 36th FEBS congress. Hsu, CW., Chuang, S.M. and Hou, M.H.* (2011). Comparison of DNA-binding properties and ant proliferative effects for chromomycin A3 dimer chelated with various divalent metal ions. 22nd FAOBMB conference. Liu, C.L., Chen, I.J. and Hou, M.H.(2011). Identification of the N-terminal domain of human coronaviral nucleocapsid protein as a potential antiviral target . 22nd FAOBMB conference. Chen, Y.W. and Hou, M.H.(2010). Probing the interaction of the residue Y148 in influenza A virus nucleoprotein involved in RNA-binding. The Taiwan society for biochemistry and molecular biology. Hou, M.H.* Lu,W.J., Wang, H.M., Yuann, J.M., and Huang, C.Y. (2010). The impact of spermine competition on the efficacy of DNA-binding Fe(II), Co(II), and Cu(II) complexes of dimeric chromomycin A(3). 4th Asian Bioinorganic Chemistry Conference. Hou, M.H., Lu,W.J., Huang, C.Y., Fan, R.J., and Yuann, J.M. (2010). Effects of polyamines on the DNA-reactive properties of dimeric mithramycin complexed with cobalt(II): implications for anticancer therapy . 24th International Conference on Organometallic Chemistry. Lo, Y.S., Chiu, Y.L. and Hou, M.H.(2010). The crucial role of C-terminal tail of human coronavirus 229E nucleocapsid protein in oligomerization. The Taiwan society for biochemistry and molecular biology. Chiang, C.H., Wu, F.C. and Hou, M.H.(2009). Probing the crucial residues of influenza virus (H1N1) nucleocapsid for RNA-bunding. 14th Joint International Conference of Biophysics and Annual Conference of the Biophsical Society of ROC. Chiu, Y.L, Lo, Y.S. and Hou, M.H.(2009). Characterization of the C-terminal domain of human coronavirus 229E nucleocapsid protein in RNA-binding and oligomerization. 14th Joint International Conference of Biophysics and Annual Conference of the Biophisical Society of ROC. Hou, M.H.* Chiang, C. H., Wu, F. C. and Lo, Y. S. (2009). Probing the crucial residues of influenza virus (H1N1) nucleoprotein for RNA-binding. VIII European Symposium of The Protein Society.

研討會論文 (*Invited speaker)

1. 1. Roshan Satange and Ming-Hon Hou*(2018, May) Synergistic intercalation of echinomycin and actinomycin D to DNA duplex with T:T mismatch causes single strand deformation. pp.104(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan
  2. Yun-Jean Lin and Ming-Hon Hou*(2018, May) Structural study of the specific interactions between echinomycin and methylated DNA containing the CCG motif .pp.103(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan
  3. Hsiang-Ti Huang and Ming-Hon Hou*(2018, May) Structural basis for the binding of Echinomycin to DNA duplex containing I:C mismatch. pp.91(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan
  4. Pei-Ching Wu, Shu-Ling Tzeng, Chung-ke Chang, Ya-Fen Kao, Michael J. Waring and Ming-Hon Hou* (2018, May) Cooperative recognition of T:T mismatch by echinomycin causes structural distortions in DNA duplex. pp.106(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan
  5. Ching-Ming Chien, Jia-Ning Hsu and Ming-Hon Hou* (2018, May) Homology Modeling and Crystallization of N-terminal domain of Porcine Epidemic Diarrhea Virus Nucleocapsid Protein. pp.90(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung,Taiwan
  6. Jing-Yi Zeng, Tzu-Jung Huang and Ming-Hon Hou* (2018, May) The terminal base pairs determine the conformation of DNA duplex with G:T mismatch. pp.117(Poster). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan
  7. Ming-Hon Hou (2018, May) Binding of small molecules to trinucleotide DNA repeats associated with fragile X syndrome. pp.34(Oral). In: The 23rd Biophysics Conference; 2018 May 23-25; Taichung, Taiwan
  8. Hou, MH; Hsu, CN (Dec, 2017) Structural basis for identification of the interface of the N-terminal domain of CoV N protein dimer as a target for drug development. pp. 196 (Abstract POS501). In: the 31st Annual Symposium ofThe Protein Society, 2017 July 24–27, Montreal, Canada.
  9. Lin, S.Y., Liu, C.L., Chang, Y.M., and Hou, M.H.*(2012, Dec). Probing the N-terminal domain of coronavirus nucleocapsid protein as a potent target for antiviral drug development.. 2012 Taiwan Society for Biochemistry and Molecular Biology.
  10. Lin, Y.H., Chen, C.L., Huang, H.S., and Hou, M.H.* (2012, Dec). The study of anthrax[1, 2-d] imidazole-6,11-dione derivatives bound to the potassium form of human telomere G-quadruplex.. 2012 Taiwan Society for Biochemistry and Molecular Biology.
  11. Chen, Y.W., andHou, M.H.* (2012, Dec). The binding of the Co(II) complex of dimeric chromomycin A3 to GC sites with flanking G:G mismatches.. 2012 Taiwan Society for Biochemistry and Molecular Biology.
  12. Tseng, W. H., Yuann, J. M., Lin, H. Y., and Hou, M.H.*(2012). The effects of loop size on Sac7d-hairpin DNA interactions.. 17th Joint International Conference of Biophysics and Annual Conference of the Biophsical Society of ROC.
  13. Hou, M.H.*., Liu, C.L., Chen, I.J. and Chou, C.C. (2011). Identification of the N-terminal domain of human coronaviral nucleocapsid protein as a potential antiviral target. The 36th FEBS congress.
  14. Hsu, CW., Chuang, S.M. and Hou, M.H.* (2011). Comparison of DNA-binding properties and ant proliferative effects for chromomycin A3 dimer chelated with various divalent metal ions. 22nd FAOBMB conference.
  15. Liu, C.L., Chen, I.J. and Hou, M.H.*(2011). Identification of the N-terminal domain of human coronaviral nucleocapsid protein as a potential antiviral target . 22nd FAOBMB conference.
  16. Chen, Y.W. and Hou, M.H.*(2010). Probing the interaction of the residue Y148 in influenza A virus nucleoprotein involved in RNA-binding. The Taiwan society for biochemistry and molecular biology.
  17. Hou, M.H.* Lu,W.J., Wang, H.M., Yuann, J.M., and Huang, C.Y. (2010). The impact of spermine competition on the efficacy of DNA-binding Fe(II), Co(II), and Cu(II) complexes of dimeric chromomycin A(3). 4th Asian Bioinorganic Chemistry Conference.
  18. Hou, M.H.*, Lu,W.J., Huang, C.Y., Fan, R.J., and Yuann, J.M. (2010). Effects of polyamines on the DNA-reactive properties of dimeric mithramycin complexed with cobalt(II): implications for anticancer therapy . 24th International Conference on Organometallic Chemistry.
  19. Lo, Y.S., Chiu, Y.L. and Hou, M.H.*(2010). The crucial role of C-terminal tail of human coronavirus 229E nucleocapsid protein in oligomerization. The Taiwan society for biochemistry and molecular biology.
  20. Chiang, C.H., Wu, F.C. and Hou, M.H.*(2009). Probing the crucial residues of influenza virus (H1N1) nucleocapsid for RNA-bunding. 14th Joint International Conference of Biophysics and Annual Conference of the Biophsical Society of ROC.
  21. Chiu, Y.L, Lo, Y.S. and Hou, M.H.*(2009). Characterization of the C-terminal domain of human coronavirus 229E nucleocapsid protein in RNA-binding and oligomerization. 14th Joint International Conference of Biophysics and Annual Conference of the Biophisical Society of ROC.
  22. Hou, M.H.* Chiang, C. H., Wu, F. C. and Lo, Y. S. (2009). Probing the crucial residues of influenza virus (H1N1) nucleoprotein for RNA-binding. VIII European Symposium of The Protein Society.

侯明宏

教授

研究方向:藥物設計，生物物理，蛋白質工程

朱彥煒

ywchu@nchu.edu.tw (04)22840338 #7041(辦公室) #7061(實驗室) 動植物防檢疫大樓7樓704室

研究室:自然計算與生物資訊核心實驗室

簡要經歷

職稱	服務單位	起訖年月
Review Editor	Frontiers in Digital Public Health	2021/07 – present
Guest Editor	Frontiers in Genetics	2021 – present
Editor	Journal of Biochemistry and Molecular Biology Research	2014/10 – present
Lead Guest Editor	Journal of Neuroscience and Neuroengineering	2012 – 2013
教授	國立中興大學基因體暨生物資訊學研究所	2019/08 -present
副教授	國立中興大學基因體暨生物資訊學研究所	2012/08 -2019/07
研究發展組組長	國立中興大學計算機及資訊網路中心	2013/08 – 2015/08
助理教授	國立中興大學基因體暨生物資訊學研究所	2008/08 – 2012/07
咨詢審查委員	中華民國行政院衛生署	2006 – present
助理教授	亞洲大學生物資訊學系	2006/08 – 2008/07
專任講師	元培科技大學資訊管理學系	2005/08 – 2006/07
專任講師	中國科技大學資訊管理系	2003/09 – 2005/07
顧問	台璧實業股份有限公司資訊處	1998/03 – 2000/03
專任講師	台灣電子化多元教育協會電子化學校	1997/03 – 1999/06
博士	國立交通大學資訊工程研究所	1998/09 – 2006/07
碩士	國立交通大學資訊科學研究所	1996/09 – 1998/07
學士	國立交通大學資訊科學系	1992/09 – 1996/07

榮譽

時間	內容
2021	「應用作物生理指標建立需水超前預警系統」入圍「2021未來科技獎」參展技術
2021	榮獲中興大學110學年度產學績優教師
2018	榮獲中興大學107學年度優聘教師
2018	國際會議The second International Conference on Medical and Health Informatics榮獲最佳論文獎
2015	榮獲教育部教育部生技產業創新創業人才培育計畫生技創新創業獎最佳人氣獎
2014	國際會議 25th International Conference on Information Management 榮獲最佳論文獎

教學與研究

研究方向
生物資訊演算法計算表觀遺傳學生醫資訊學演化式計算類神經網路模糊系統資料探勘智慧計算自然計算

教授課程:

課程名稱
自然計算應用特論(基資所)、機器學習(資工系)、生物資訊發展現況(分生所)、生物資訊程式設計(基資所)、生物資訊學暨實習(生科系)、應用基因體學及生物資訊學暨實習(基資所)

著作

期刊論文 (*Corresponding author)
Chi-Hua Tung, Yi-Sheng Chang, Kai-Po Chang and Yen-Wei Chu* (2021) NIgPred: Class-Specific Antibody Prediction for Linear B-Cell Epitopes Based on Heterogeneous Features and Machine-Learning Approaches，Viruses, 13(8), 1531. Chi-Wei Chen, Lan-Ying Huang, Chia-Feng Liao, Kai-Po Chang and Yen-Wei Chu* (2020) GasPhos: Protein Phosphorylation Site Prediction Using a New Feature Selection Approach with a GA-Aided Ant Colony System, International Journal of Molecular Sciences, 21(21):7891.(SCI) Ching-Hsuan Chien, Chi-Chang Chang, Shih-Huan Lin, Chi-Wei Chen, Zong-Han Chang and Yen-Wei Chu* (2020 )N-GlycoGo: Predicting Protein N-glycosylation Sites on Imbalanced Data Sets by Using Heterogeneous and Comprehensive Strategy, IEEE Access, doi:10.1109/ACCESS.2020.3022629. (SCI) Kai-Po Chang, John Wang, Chi-Chang Chang,and Yen-Wei Chu* (2020) Development of a Novel Tool for the Retrieval and Analysis of Hormone Receptor Expression Characteristics in Metastatic Breast Cancer via Data Mining on Pathology Reports, BioMed Research International, 2020(7):2654815.(SCI) Yen-Wei Chu, Ching-Hsuan Chien, Mei-I Sung, Chi-Wei Chen, and Yu-Ting Chen (2020) dBMHCC: a comprehensive Hepatocellular carcinoma (HCC) biomarker database provides a reliable prediction system for novel HCC phosphorylated biomarkers, PLoS ONE, 15(6): e0234084. (SCI) Chi-Hua Tung, Ching-Hsuan Chien, Chi-Wei Chen, Lan-Ying Huang, Yu-Nan Liu and Yen-Wei Chu* (2020) QUATgo: Protein quaternary structural attributes predicted by two-stage machine learning approaches with heterogeneous feature encoding, PLoS ONE, 15(4): e0232087. (SCI) Chi-Wei Chen, Meng-Han Lin, Chi-Chou Liao, Hsung-Pin Chang and Yen-Wei Chu* (2020) iStable 2.0: Predicting protein thermal stability changes by integrating various characteristic modules, Computational and Structural Biotechnology Journal, 18:622-630. (SCI: 6.018) Yen-Wei Chu, Kai-Po Chang, Chi-Wei Chen, Yu-Tai Liang, Zhi Thong Soh and Li‐Ching Hsieh* (2020) miRgo: integrating various off-the-shelf tools for identification of microRNA–target interactions by heterogeneous features and a novel evaluation indicator, Scientific Reports, 10:1466. (SCI) Jehn-Hwa Kuo, Chi-Chang Chang, Chi-Wei Chen, Heng-Hao Liang, Chih-Yen Chang and Yen-Wei Chu* (2020) Sequence-Based Structural B-cell Epitope Prediction by Using Two Layer SVM Model and Association Rule Features, Current Bioinformatics, 15(3), doi:10.2174/1574893614666181123155831 (SCI) Jone-Han Liu, Chi-Chang Chang, Chi-Wei Chen, Li-Ting Wong and Yen-Wei Chu* (2019) Conservation region finding for influenza A viruses by machine learning methods of N-linked glycosylation sites and B-cell epitopes, Mathematical Biosciences, 315:108217. (SCI) Chi-Chou Liao, Liang-Jwu Chen, Shuen-Fang Lo, Chi-Wei Chen and Yen-Wei Chu* (2019) EAT-Rice: A predictive model for flanking gene expression of T-DNA insertion activation-tagged rice mutants by machine learning approaches, PLoS Comput Biol, 15(5):e1006942. (SCI) Kai-Po Chang, Yen-Wei Chu* and John Wang (2019) Analysis of Hormone Receptor Status in Primary and Recurrent Breast Cancer Via Data Mining Pathology Reports, Open Medicine, 20(14): 91-98. (SCI) Jehn-Hwa Kuo, Chi-Chang Chang, Chi-Wei Chen, Heng-Hao Liang, Chih-Yen Chang and Yen-Wei Chu* (2019) Sequence-Based Structural B-cell Epitope Prediction by Using Two Layer SVM Model and Association Rule Features, Current Bioinformatics, DOI: 10.2174/1574893614666181123155831 (SCI) Yu-Ting Chen, Chi-Chang Chang, Chi-Wei Chen, Kuan-Chun Chen and Yen-Wei Chu* (2019) MADS-Box Gene Classification in Angiosperms by Clustering and Machine Learning Approaches, Frontiers in Genetics, 8(9): 707. (SCI) Chi-Wei Chen, Kai-Po Chang, Cheng-Wei Ho, Hsung-Pin Chang and Yen-Wei Chu* (2018) KStable: A Computational Method for Predicting Protein Thermal Stability Changes by K-Star with Regular-mRMR Feature Selection, Entropy, 20(12): 988. (SCI) Chi-Chang Chang,Chi-Hua Tung,Chi-Wei Chen,Chin-Hau Tu and Yen-Wei Chu* (2018) SUMOgo: Prediction of sumoylation sites on lysines by motif screening models and the effects of various post-translational modifications. scientific report, 19;8(1):15512. doi: https://doi.org/10.1038/s41598-018-33951-5 (SCI) Quan Zou, Chi-Wei Chen, Hao-Chen Chang and Yen-Wei Chu* (2018) Identifying Cleavage Sites of Gelatinases A and B by Integrating Feature Computing Models. Journal of Universal Computer Science, Vol. 24, No. 6, pp. 711-724 (SCI) Chi-Chou Huang, Chi-Chang Chang, Chi-Wei Chen, Shao-yu Ho, Hsung-Pin Chang and Yen-Wei Chu* (2018) PClass: Protein Quaternary Structure Classification by Using Bootstrapping Strategy as Model Selection. Genes, Vol. 9, No. 2, pii: E91. doi: 10.3390/genes9020091 (SCI) Chi-Wei Chen, Chi-Chang Chang, Hui-Chih Hung, Hsung-Pin Chang and Yen-Wei Chu* (2018) Constructing Feature Models for Citrullination Sites Prediction. Journal of Quality, Vol. 25, No. 3, doi:10.6220/joq.201806_25(3).0004 (EI) Chi-Hua Tung, Pei-Wei Shueng, Yen-Wei Chu, Chi-Wei Chen, Chian-Ying Chen (2017) Identifying Post-Translational Modification Crosstalks for Breast Cancer. Journal of Computing Science and Engineering, Vol. 11, No. 4, pp. 111-120 (EI)* Chi-Hua Tung, Chi-Wei Chen, Han-Hao Sun, Yen-Wei Chu* (2017) Predicting human protein subcellular localization by heterogeneous and comprehensive approaches, PLoS ONE, 12(6):e0178832. doi: 10.1371/journal.pone.0178832 (SCI) Chi-Hua Tung, Chi-Wei Chen, Ren-Chao Guo, Hui-Fuang Ng, Yen-Wei Chu* (2016) QuaBingo: A Prediction System for Protein Quaternary Structure Attributes Using Block Composition, BioMed Research International, 2016:9480276, doi:10.1155/2016/9480276 (SCI : 2.134) Han-Ju Chien+, Yen-Wei Chu+, Chi-Wei Chen, Yu-Min Juang, Min-Wei Chien, Chih-Wei Liu, Chia-Chang Wu, Jason T.C. Tzen and Chien-Chen Lai* (2016) 2-DE combined with two-layer feature selection accurately establishes the origin of oolong tea, Food Chemistry, 211:392-9, doi:10.1016/j.foodchem.2016.05.043 (SCI: 4.052 , Co-first Author) Chi-Wei Chen, Jerome Lin, Yen-Wei Chu* (2013) iStable: Off-the-shelf Predictor Integration for Predicting Protein Stability Changes, BMC Bioinformatics, 14(suppl 2):S5, doi:10.1186/1471-2105-14-S2-S5 (SCI:2.435, ranking: 17.9%) Wei-Jie Pan, Chi-Wei Chen, Heng-Hao Liang, Yen-Wei Chu* (2012) Selecting High Efficacy siRNAs by Computational Models, Advanced Science Letters, 18: 141-144. (SCI:1.253, ranking: 25%) Chang-Hsien Yang, Yu-Yun Chang, Chi-Wei Chen, Min-Cheng Chan, Yen-Wei Chu* (2012) iMADS: The Class Identification of MADS-box Gene on Angiosperm, Advanced Science Letters, 18: 170-175.(SCI:1.253, ranking: 25%) Po-Chang Chang, Wei-Jie Pan, Chi-Wei Chen,Yu-Ting Chen and Yen-Wei Chu* (2012) DEsi: an design engine of siRNA that integrates SVMs prediction and feature filters, Biocatalysis and Agricultural Biotechnology, doi: 10.1016/j.bcab.2012.01.005 Wei-Jie Pan, Chi-Wei Chen and Yen-Wei Chu* (2011)siPRED: Predicting siRNA efficacy using various characteristic methods, PLoS ONE, doi: 10.1371/journal.pone.0027602 (SCI :3.057) Yu-Yun Chang+,Yen-Wei Chu+, Chi-Wei Chen, Wei-Ming Leu, Hsing-Fun Hsu and Chang-Hsien Yang* (2011) Characterization of Oncidium ‘Gower Ramsey’ Transcriptomes using 454 GS-FLX Pyrosequencing and Their Application to the Identification of Genes Associated with Flowering Time, Plant and Cell Physiology, 52(9): 1532-1545 (SCI: 4.319 , Co-first Author) Hui-Fuang Ng, Zeng-Wei Hong and Yen-Wei Chu (2008) “Pose and Expression Invariant Face Recognition from a Single Training Sample Using Similarity Vector”, Journal of Cybernetics and Systems, 1(1): 21-26. (International Journal) Yen-Wei Chu* and Chuen-Tsai Sun (2007) Problem-based Approach for Bioinformatics. International Journal of Instructional Media,Vol. 34 #4. (International Journal) Yen-Wei Chu, Chuen-Tsai Sun, and Chung-Yuan Huang (2006) Regularity of Protein Secondary Structures and Its Prediction. WSEAS Transactions on Systems, 2(5), pp. 380-387. (EI)* Chung-Yuan Huang, Chuen-Tsai Sun, and Yen-Wei Chu (2006) A Co-adaptive Approach to XCS Classifier Systems. WSEAS Transactions on Systems, 2(5), pp. 388-394. (EI) Yen-Wei Chu* and. Jinn-Moon Yang (2003) Finding Regularity in Various Types of Secondary Protein Structures, Journal of Information Science and Engineering, vol. 19, pp.943-952.(SCI)

期刊論文 (*Corresponding author)

Chi-Hua Tung, Yi-Sheng Chang, Kai-Po Chang and Yen-Wei Chu* (2021) NIgPred: Class-Specific Antibody Prediction for Linear B-Cell Epitopes Based on Heterogeneous Features and Machine-Learning Approaches，Viruses, 13(8), 1531.
Chi-Wei Chen, Lan-Ying Huang, Chia-Feng Liao, Kai-Po Chang and Yen-Wei Chu* (2020) GasPhos: Protein Phosphorylation Site Prediction Using a New Feature Selection Approach with a GA-Aided Ant Colony System, International Journal of Molecular Sciences, 21(21):7891.(SCI)
Ching-Hsuan Chien, Chi-Chang Chang, Shih-Huan Lin, Chi-Wei Chen, Zong-Han Chang and Yen-Wei Chu* (2020 )N-GlycoGo: Predicting Protein N-glycosylation Sites on Imbalanced Data Sets by Using Heterogeneous and Comprehensive Strategy, IEEE Access, doi:10.1109/ACCESS.2020.3022629. (SCI)
Kai-Po Chang, John Wang, Chi-Chang Chang,and Yen-Wei Chu* (2020) Development of a Novel Tool for the Retrieval and Analysis of Hormone Receptor Expression Characteristics in Metastatic Breast Cancer via Data Mining on Pathology Reports, BioMed Research International, 2020(7):2654815.(SCI)
Yen-Wei Chu, Ching-Hsuan Chien, Mei-I Sung, Chi-Wei Chen, and Yu-Ting Chen (2020) dBMHCC: a comprehensive Hepatocellular carcinoma (HCC) biomarker database provides a reliable prediction system for novel HCC phosphorylated biomarkers, PLoS ONE, 15(6): e0234084. (SCI)
Chi-Hua Tung, Ching-Hsuan Chien, Chi-Wei Chen, Lan-Ying Huang, Yu-Nan Liu and Yen-Wei Chu* (2020) QUATgo: Protein quaternary structural attributes predicted by two-stage machine learning approaches with heterogeneous feature encoding, PLoS ONE, 15(4): e0232087. (SCI)
Chi-Wei Chen, Meng-Han Lin, Chi-Chou Liao, Hsung-Pin Chang and Yen-Wei Chu* (2020) iStable 2.0: Predicting protein thermal stability changes by integrating various characteristic modules, Computational and Structural Biotechnology Journal, 18:622-630. (SCI: 6.018)
Yen-Wei Chu, Kai-Po Chang, Chi-Wei Chen, Yu-Tai Liang, Zhi Thong Soh and Li‐Ching Hsieh* (2020) miRgo: integrating various off-the-shelf tools for identification of microRNA–target interactions by heterogeneous features and a novel evaluation indicator, Scientific Reports, 10:1466. (SCI)
Jehn-Hwa Kuo, Chi-Chang Chang, Chi-Wei Chen, Heng-Hao Liang, Chih-Yen Chang and Yen-Wei Chu* (2020) Sequence-Based Structural B-cell Epitope Prediction by Using Two Layer SVM Model and Association Rule Features, Current Bioinformatics, 15(3), doi:10.2174/1574893614666181123155831 (SCI)
Jone-Han Liu, Chi-Chang Chang, Chi-Wei Chen, Li-Ting Wong and Yen-Wei Chu* (2019) Conservation region finding for influenza A viruses by machine learning methods of N-linked glycosylation sites and B-cell epitopes, Mathematical Biosciences, 315:108217. (SCI)
Chi-Chou Liao, Liang-Jwu Chen, Shuen-Fang Lo, Chi-Wei Chen and Yen-Wei Chu* (2019) EAT-Rice: A predictive model for flanking gene expression of T-DNA insertion activation-tagged rice mutants by machine learning approaches, PLoS Comput Biol, 15(5):e1006942. (SCI)
Kai-Po Chang, Yen-Wei Chu* and John Wang (2019) Analysis of Hormone Receptor Status in Primary and Recurrent Breast Cancer Via Data Mining Pathology Reports, Open Medicine, 20(14): 91-98. (SCI)
Jehn-Hwa Kuo, Chi-Chang Chang, Chi-Wei Chen, Heng-Hao Liang, Chih-Yen Chang and Yen-Wei Chu* (2019) Sequence-Based Structural B-cell Epitope Prediction by Using Two Layer SVM Model and Association Rule Features, Current Bioinformatics, DOI: 10.2174/1574893614666181123155831 (SCI)
Yu-Ting Chen, Chi-Chang Chang, Chi-Wei Chen, Kuan-Chun Chen and Yen-Wei Chu* (2019) MADS-Box Gene Classification in Angiosperms by Clustering and Machine Learning Approaches, Frontiers in Genetics, 8(9): 707. (SCI)
Chi-Wei Chen, Kai-Po Chang, Cheng-Wei Ho, Hsung-Pin Chang and Yen-Wei Chu* (2018) KStable: A Computational Method for Predicting Protein Thermal Stability Changes by K-Star with Regular-mRMR Feature Selection, Entropy, 20(12): 988. (SCI)
Chi-Chang Chang,Chi-Hua Tung,Chi-Wei Chen,Chin-Hau Tu and Yen-Wei Chu* (2018) SUMOgo: Prediction of sumoylation sites on lysines by motif screening models and the effects of various post-translational modifications. scientific report, 19;8(1):15512. doi: https://doi.org/10.1038/s41598-018-33951-5 (SCI)
Quan Zou, Chi-Wei Chen, Hao-Chen Chang and Yen-Wei Chu* (2018) Identifying Cleavage Sites of Gelatinases A and B by Integrating Feature Computing Models. Journal of Universal Computer Science, Vol. 24, No. 6, pp. 711-724 (SCI)
Chi-Chou Huang, Chi-Chang Chang, Chi-Wei Chen, Shao-yu Ho, Hsung-Pin Chang and Yen-Wei Chu* (2018) PClass: Protein Quaternary Structure Classification by Using Bootstrapping Strategy as Model Selection. Genes, Vol. 9, No. 2, pii: E91. doi: 10.3390/genes9020091 (SCI)
Chi-Wei Chen, Chi-Chang Chang, Hui-Chih Hung, Hsung-Pin Chang and Yen-Wei Chu* (2018) Constructing Feature Models for Citrullination Sites Prediction. Journal of Quality, Vol. 25, No. 3, doi:10.6220/joq.201806_25(3).0004 (EI)
Chi-Hua Tung, Pei-Wei Shueng, Yen-Wei Chu*, Chi-Wei Chen, Chian-Ying Chen (2017) Identifying Post-Translational Modification Crosstalks for Breast Cancer. Journal of Computing Science and Engineering, Vol. 11, No. 4, pp. 111-120 (EI)
Chi-Hua Tung, Chi-Wei Chen, Han-Hao Sun, Yen-Wei Chu* (2017) Predicting human protein subcellular localization by heterogeneous and comprehensive approaches, PLoS ONE, 12(6):e0178832. doi: 10.1371/journal.pone.0178832 (SCI)
Chi-Hua Tung, Chi-Wei Chen, Ren-Chao Guo, Hui-Fuang Ng, Yen-Wei Chu* (2016) QuaBingo: A Prediction System for Protein Quaternary Structure Attributes Using Block Composition, BioMed Research International, 2016:9480276, doi:10.1155/2016/9480276 (SCI : 2.134)
Han-Ju Chien+, Yen-Wei Chu+, Chi-Wei Chen, Yu-Min Juang, Min-Wei Chien, Chih-Wei Liu, Chia-Chang Wu, Jason T.C. Tzen and Chien-Chen Lai* (2016) 2-DE combined with two-layer feature selection accurately establishes the origin of oolong tea, Food Chemistry, 211:392-9, doi:10.1016/j.foodchem.2016.05.043 (SCI: 4.052 , Co-first Author)
Chi-Wei Chen, Jerome Lin, Yen-Wei Chu* (2013) iStable: Off-the-shelf Predictor Integration for Predicting Protein Stability Changes, BMC Bioinformatics, 14(suppl 2):S5, doi:10.1186/1471-2105-14-S2-S5 (SCI:2.435, ranking: 17.9%)
Wei-Jie Pan, Chi-Wei Chen, Heng-Hao Liang, Yen-Wei Chu* (2012) Selecting High Efficacy siRNAs by Computational Models, Advanced Science Letters, 18: 141-144. (SCI:1.253, ranking: 25%)
Chang-Hsien Yang, Yu-Yun Chang, Chi-Wei Chen, Min-Cheng Chan, Yen-Wei Chu* (2012) iMADS: The Class Identification of MADS-box Gene on Angiosperm, Advanced Science Letters, 18: 170-175.(SCI:1.253, ranking: 25%)
Po-Chang Chang, Wei-Jie Pan, Chi-Wei Chen,Yu-Ting Chen and Yen-Wei Chu* (2012) DEsi: an design engine of siRNA that integrates SVMs prediction and feature filters, Biocatalysis and Agricultural Biotechnology, doi: 10.1016/j.bcab.2012.01.005
Wei-Jie Pan, Chi-Wei Chen and Yen-Wei Chu* (2011)siPRED: Predicting siRNA efficacy using various characteristic methods, PLoS ONE, doi: 10.1371/journal.pone.0027602 (SCI :3.057)
Yu-Yun Chang+,Yen-Wei Chu+, Chi-Wei Chen, Wei-Ming Leu, Hsing-Fun Hsu and Chang-Hsien Yang* (2011) Characterization of Oncidium ‘Gower Ramsey’ Transcriptomes using 454 GS-FLX Pyrosequencing and Their Application to the Identification of Genes Associated with Flowering Time, Plant and Cell Physiology, 52(9): 1532-1545 (SCI: 4.319 , Co-first Author)
Hui-Fuang Ng, Zeng-Wei Hong and Yen-Wei Chu (2008) “Pose and Expression Invariant Face Recognition from a Single Training Sample Using Similarity Vector”, Journal of Cybernetics and Systems, 1(1): 21-26. (International Journal)
Yen-Wei Chu* and Chuen-Tsai Sun (2007) Problem-based Approach for Bioinformatics. International Journal of Instructional Media,Vol. 34 #4. (International Journal)
Yen-Wei Chu*, Chuen-Tsai Sun, and Chung-Yuan Huang (2006) Regularity of Protein Secondary Structures and Its Prediction. WSEAS Transactions on Systems, 2(5), pp. 380-387. (EI)
Chung-Yuan Huang, Chuen-Tsai Sun, and Yen-Wei Chu (2006) A Co-adaptive Approach to XCS Classifier Systems. WSEAS Transactions on Systems, 2(5), pp. 388-394. (EI)
Yen-Wei Chu* and. Jinn-Moon Yang (2003) Finding Regularity in Various Types of Secondary Protein Structures, Journal of Information Science and Engineering, vol. 19, pp.943-952.(SCI)

學術研討會論文 (*Invited speaker)
Chen Chi-Wei, Chin-Hau Tu and Yen-Wei Chu* (2018) SUMOylation Sites Prediction by Machine Learning Approaches, IEEE International Conference on Consumer Electronics-Taiwan. (http://edas.info/p24335#S1569554145) Kai-Po Chang, Chi-Chang Chang, Yen-Wei Chu* and John Wang* (2018) BreastExtractor: A Word/Phrase Matching-Based Text Mining Program for Automatic Extraction of Hormone Receptor Data from Free-text Pathology Reports on Breast Cancer, the second International Conference on Medical and Health Informatics. (Best Paper Award) Kai-Po Chang, John Wang* and Yen-Wei Chu* (2016) Big data in pathologists’ office: large-scale extraction and analysis of immunohistochemical study result in free-text pathology reports by a client-side Python script, Paper presented at 2016 Annual Meeting of Taiwan Society Of Pathology, Taipei, Taiwan. Ci-Jhou Liao, Liang-Jwu Chen, Yen-Wei Chu* (2014) Using machine learning approach to predict the flanking genes expression in T-DNA insertion activation-tagged rice lines, Summer Workshop on Plant Molecular Biology, Nantou County, Taiwan, July 4-6. Chi-Wei Chen, Hui-Chih Hung, Yen-Wei Chu* (2014) Citrullination Sites Prediction by Machine Learning Approaches, Proceedings of the 25th International Conference on Information Management (ICIM 2014), pp. 1-13. (Best Paper Award) Chi-Wei Chen, Hui-Chih Hung, Yen-Wei Chu* (2013) Feature Model Integration by Evolutionary Computation for Predicting Protein Citrullination sites, Proceedings of the Taiwan Academic Network Conference 2013 (TANet 2013), pp. 1047-1052. Hao-Chen Chang and Yen-Wei Chu* (2013) Gelatinase Substrate Cleavage Sites Prediction Using Machine Learning and Feature Selection, Proceedings of the Taiwan Academic Network Conference 2013 (TANet 2013), pp. 1053-1058. Chi-Wei Chen, Jerome Lin, Yen-Wei Chu* (2013) iStable: Off-the-shelf Predictor Integration for Predicting Protein Stability Changes, The Eleventh Asia Pacific Bioinformatics Conference, Vancouver, BC, Canada, January 21-23. Wen-Pin Hu, Chi-Wei Chen, Jian-Shiun Chen, and Yen-Wei Chu* (2012) Evaluating various machine learning approaches for the sunspot number prediction. Symposium of university league in Changhua, Yunlin, and Chiayi, Taiwan, December 7. Yu-Yun Chang, Yen-Wei Chu, Wei-Ming Leu and Chang-Hsien Yang* (2011) Characterization of Oncidium ‘Gower Ramsey’ transcriptome for using GS-FLX 454 pyrosequencing and its application for studies of flowering time associate genes. The International Conference Plant Gene Discovery Technologies. Venue. February 23- 26. Yu-Yun Chang, Yen-Wei Chu, Hsing-Fun Hsu, Chi-Wei Chen, Wei-Ming Leu and Chang-Hsien Yang* (2011) Characterization of Oncidium ‘Gower Ramsey’ transcriptomes using 454 GS-FLX pyrosequencing and their application to theidentification of genes associated with flowering time. 2011 Canadian Plant Genomics Workshop, Niagara Falls, Ontario. Canada, August 22-25. Wei-Jie Pan, Chi-Wei Chen and Yen-Wei Chu* (2011) High efficacy siRNA selection using machine learning approach, Proceedings of 2011 Joint Conference on 7th Taiwan Software Engineering (TCSE) and 22nd Object-Oriented Technology and Applications (OOTA), pp. 94-99 Qiu-Hui Lin, Chi-Wei Chen, Zeng-Wei Hong,* and Yen-Wei Chu* (2009) PredPhosGrid – A Grid-based Phosphorylation Prediction System by Reengineering off-the-shelf Bioinformatic Websites, Proceedings of the 20th Workshop on Object-Oriented Technology and Applications, pp. 1-6. Cheng-Yu Liao, Wei-Fu Lu and Yen-Wei Chu* (2009) Using Genetic Algorithms to Assist the Classification of Biological Documents: An Example of Mushroom and Toadstool Data, Information Management and Commerce Technology Conference, pp. 559, Yunlin, Taiwan. Yen-Wei Chu, Chin-Sheng Yu. and Hui-Fuang Ng. (2008) Protein Secondary Structures Prediction Using Data Fusion Approach, Proceedings of the 7th IEEE World Congress on Intelligent Control and Automation (WCICA), v. 4, pp. 1885-1890. (EI,* NSC 96-2218-E-468-001) Hui-Fuang Ng* and Yen-Wei Chu (2008) Illumination Invariant Color Model for Image Matching and Object Recognition, The Eighth International Conference on Intelligent Systems Design and Applications.(EI) Yen-Wei Chu, Chin-Sheng Yu., Chia-Hsiang Pai and You-Ting Wu (2007) Protein Phosphorylation Site Prediction Using Data Fusion Approach, National Computer Symposium, v1, pp. 1-8 (NSC 96-2218-E-468-001) Yen-Wei Chu, Chin-Sheng Yu., Chih-Ying Chen and Kun-Chang Hsieh (2007) Applying Sequence Conservation Strategy to Predict Protein Phosphorylation Site, National Computer Symposium, v1, pp.9-15 (NSC 96-2218-E-468-001) Ting-Yi Chang, Yi-Ting Chen, and Yen-Wei Chu (2007) ‘Develop the Peer Assessment of Cooperative Learning in e-Learning — Using Consistent Fuzzy Preference Relation, National Computer Symposium, pp. 554-561 Hui-Fuang Ng, Ding-Fu Wang and Yen-Wei Chu (2007) Illumination invariant color descriptors for image matching. The 20th IPPR Conference on Computer Vision, Graphics and Image Processing, Miaoli, Taiwan. Yen-Wei Chu* and Chuen-Tsai Sun (2006) A Hybrid Genetic Algorithm Approach for Protein Secondary Structures, Proceedings of the 6th IEEE World Congress on Intelligent Control and Automation (WCICA), v. 4, pp. 3320-3324. (EI) Yen-Wei Chu, Chuen-Tsai Sun, and Chung-Yuan Huang (2005) Finding Regularity in Protein Secondary Structures using a Cluster-based Genetic Algorithm. In Proceedings of International Conference on Computational Intelligence, Man-Machine Systems and Cybernetics (CIMMACS’05), Miami, Florida, USA, pp. 179-183. (IEE, EI)* Chung-Yuan Huang, Chuen-Tsai Sun, and Yen-Wei Chu (2005) Using a Coevolution Mechanism with a Dyna Architecture for Parameter Adaptation in XCS Classifier Systems. In Proceedings of International Conference on Computational Intelligence, Man-Machine Systems and Cybernetics (CIMMACS’05), Miami, Florida, USA, pp. 173-178. (IEE, EI)* Yen-Wei Chu* and Chuen-Tsai Sun (2004) Regularity of secondary protein structures: A genetic algorithm approach, Proceedings of the 5th IEEE World Congress on Intelligent Control and Automation (WCICA), v. 3, pp. 2104-2108.(EI) Chuen-Tsai Sun* and Yen-Wei Chu (1997) Hysteresis Behavior in Fuzzy Perception: A Preliminary Experiment. Second International ICSC Symposium on Intelligent Industrial Automation and Soft Computing, Nimes, France, Sep. 1997.

學術研討會論文 (*Invited speaker)

Chen Chi-Wei, Chin-Hau Tu and Yen-Wei Chu* (2018) SUMOylation Sites Prediction by Machine Learning Approaches, IEEE International Conference on Consumer Electronics-Taiwan. (http://edas.info/p24335#S1569554145)
Kai-Po Chang, Chi-Chang Chang, Yen-Wei Chu* and John Wang* (2018) BreastExtractor: A Word/Phrase Matching-Based Text Mining Program for Automatic Extraction of Hormone Receptor Data from Free-text Pathology Reports on Breast Cancer, the second International Conference on Medical and Health Informatics. (Best Paper Award)
Kai-Po Chang, John Wang* and Yen-Wei Chu* (2016) Big data in pathologists’ office: large-scale extraction and analysis of immunohistochemical study result in free-text pathology reports by a client-side Python script, Paper presented at 2016 Annual Meeting of Taiwan Society Of Pathology, Taipei, Taiwan.
Ci-Jhou Liao, Liang-Jwu Chen, Yen-Wei Chu* (2014) Using machine learning approach to predict the flanking genes expression in T-DNA insertion activation-tagged rice lines, Summer Workshop on Plant Molecular Biology, Nantou County, Taiwan, July 4-6.
Chi-Wei Chen, Hui-Chih Hung, Yen-Wei Chu* (2014) Citrullination Sites Prediction by Machine Learning Approaches, Proceedings of the 25th International Conference on Information Management (ICIM 2014), pp. 1-13. (Best Paper Award)
Chi-Wei Chen, Hui-Chih Hung, Yen-Wei Chu* (2013) Feature Model Integration by Evolutionary Computation for Predicting Protein Citrullination sites, Proceedings of the Taiwan Academic Network Conference 2013 (TANet 2013), pp. 1047-1052.
Hao-Chen Chang and Yen-Wei Chu* (2013) Gelatinase Substrate Cleavage Sites Prediction Using Machine Learning and Feature Selection, Proceedings of the Taiwan Academic Network Conference 2013 (TANet 2013), pp. 1053-1058.
Chi-Wei Chen, Jerome Lin, Yen-Wei Chu* (2013) iStable: Off-the-shelf Predictor Integration for Predicting Protein Stability Changes, The Eleventh Asia Pacific Bioinformatics Conference, Vancouver, BC, Canada, January 21-23.
Wen-Pin Hu, Chi-Wei Chen, Jian-Shiun Chen, and Yen-Wei Chu* (2012) Evaluating various machine learning approaches for the sunspot number prediction. Symposium of university league in Changhua, Yunlin, and Chiayi, Taiwan, December 7.
Yu-Yun Chang, Yen-Wei Chu, Wei-Ming Leu and Chang-Hsien Yang* (2011) Characterization of Oncidium ‘Gower Ramsey’ transcriptome for using GS-FLX 454 pyrosequencing and its application for studies of flowering time associate genes. The International Conference Plant Gene Discovery Technologies. Venue. February 23- 26.
Yu-Yun Chang, Yen-Wei Chu, Hsing-Fun Hsu, Chi-Wei Chen, Wei-Ming Leu and Chang-Hsien Yang* (2011) Characterization of Oncidium ‘Gower Ramsey’ transcriptomes using 454 GS-FLX pyrosequencing and their application to theidentification of genes associated with flowering time. 2011 Canadian Plant Genomics Workshop, Niagara Falls, Ontario. Canada, August 22-25.
Wei-Jie Pan, Chi-Wei Chen and Yen-Wei Chu* (2011) High efficacy siRNA selection using machine learning approach, Proceedings of 2011 Joint Conference on 7th Taiwan Software Engineering (TCSE) and 22nd Object-Oriented Technology and Applications (OOTA), pp. 94-99
Qiu-Hui Lin, Chi-Wei Chen, Zeng-Wei Hong,* and Yen-Wei Chu* (2009) PredPhosGrid – A Grid-based Phosphorylation Prediction System by Reengineering off-the-shelf Bioinformatic Websites, Proceedings of the 20th Workshop on Object-Oriented Technology and Applications, pp. 1-6.
Cheng-Yu Liao, Wei-Fu Lu and Yen-Wei Chu* (2009) Using Genetic Algorithms to Assist the Classification of Biological Documents: An Example of Mushroom and Toadstool Data, Information Management and Commerce Technology Conference, pp. 559, Yunlin, Taiwan.
Yen-Wei Chu*, Chin-Sheng Yu. and Hui-Fuang Ng. (2008) Protein Secondary Structures Prediction Using Data Fusion Approach, Proceedings of the 7th IEEE World Congress on Intelligent Control and Automation (WCICA), v. 4, pp. 1885-1890. (EI, NSC 96-2218-E-468-001)
Hui-Fuang Ng* and Yen-Wei Chu (2008) Illumination Invariant Color Model for Image Matching and Object Recognition, The Eighth International Conference on Intelligent Systems Design and Applications.(EI)
Yen-Wei Chu*, Chin-Sheng Yu., Chia-Hsiang Pai and You-Ting Wu (2007) Protein Phosphorylation Site Prediction Using Data Fusion Approach, National Computer Symposium, v1, pp. 1-8 (NSC 96-2218-E-468-001)
Yen-Wei Chu*, Chin-Sheng Yu., Chih-Ying Chen and Kun-Chang Hsieh (2007) Applying Sequence Conservation Strategy to Predict Protein Phosphorylation Site, National Computer Symposium, v1, pp.9-15 (NSC 96-2218-E-468-001)
Ting-Yi Chang*, Yi-Ting Chen, and Yen-Wei Chu (2007) ‘Develop the Peer Assessment of Cooperative Learning in e-Learning — Using Consistent Fuzzy Preference Relation, National Computer Symposium, pp. 554-561
Hui-Fuang Ng*, Ding-Fu Wang and Yen-Wei Chu (2007) Illumination invariant color descriptors for image matching. The 20th IPPR Conference on Computer Vision, Graphics and Image Processing, Miaoli, Taiwan.
Yen-Wei Chu* and Chuen-Tsai Sun (2006) A Hybrid Genetic Algorithm Approach for Protein Secondary Structures, Proceedings of the 6th IEEE World Congress on Intelligent Control and Automation (WCICA), v. 4, pp. 3320-3324. (EI)
Yen-Wei Chu*, Chuen-Tsai Sun, and Chung-Yuan Huang (2005) Finding Regularity in Protein Secondary Structures using a Cluster-based Genetic Algorithm. In Proceedings of International Conference on Computational Intelligence, Man-Machine Systems and Cybernetics (CIMMACS’05), Miami, Florida, USA, pp. 179-183. (IEE, EI)
Chung-Yuan Huang*, Chuen-Tsai Sun, and Yen-Wei Chu (2005) Using a Coevolution Mechanism with a Dyna Architecture for Parameter Adaptation in XCS Classifier Systems. In Proceedings of International Conference on Computational Intelligence, Man-Machine Systems and Cybernetics (CIMMACS’05), Miami, Florida, USA, pp. 173-178. (IEE, EI)
Yen-Wei Chu* and Chuen-Tsai Sun (2004) Regularity of secondary protein structures: A genetic algorithm approach, Proceedings of the 5th IEEE World Congress on Intelligent Control and Automation (WCICA), v. 3, pp. 2104-2108.(EI)
Chuen-Tsai Sun* and Yen-Wei Chu (1997) Hysteresis Behavior in Fuzzy Perception: A Preliminary Experiment. Second International ICSC Symposium on Intelligent Industrial Automation and Soft Computing, Nimes, France, Sep. 1997.

專書與專書論文
Chu Y.W. (2006) Finding Protein Secondary Structure Regularity and Related Applications: National Chiao Tung University, Hsinchu, Taiwan. (Dissertation) Chu Y.W. (1998) Studies on Hysteresis: Human Perception and Time Series Prediction: National Chiao Tung University, Hsinchu, Taiwan. (Master Thesis)

朱彥煒

教授兼所長

研究方向: Bioinformatics algorithms, Precision medicine, Intelligent agriculture, Big data analysis, Artificial intelligence

陳盈璁

onion@nchu.edu.tw (04)22840338 #7101(辦公室) #7111(實驗室) 動植物防檢疫大樓7樓711室

研究室:微生物基因體核心研究室

簡要經歷

職稱	服務單位	起訖年月
副教授	國立中興大學基因體暨生物資訊所	2015.02 –
助理教授	國立中興大學基因體暨生物資訊所	2010.08 – 2015.01
合聘助研究員	國家衛生研究院分子與基因醫學研究所	2011 –
助理教授	國立中興大學基因體暨生物資訊所	2009 – 2010
博士後研究	國家衛生研究院分子與基因醫學研究組	2004~2009
博士	國立交通大學生物科技系

榮譽

時間	內容
2014	中興大學傑出青年教師
2015	中興大學104 學年度優良通識教師
2018	中興大學107學年度優聘教師

教學與研究

研究方向
細菌基因體學功能性基因體學比較基因體學質體研究

教授課程:

課程名稱
生物化學(大學部園藝動科) 細胞生物學(大學部生技學程) 生物資訊學暨實習(大學部生科系) 生命科學與生物資訊趣談(大學通識課程) 生物化學(食生系) 散彈槍定序原理與實習(基資所) 功能性生物學(基資所) 生醫大數據特論(一、二)(基資所) 微生物遺傳與基因體特論(一、二)(基資所) 應用基因體學及生物資訊學暨實習(基資所) 專題討論 (基資所) 專題研究E (醫科學程)

課程名稱

生物化學(大學部園藝動科)
細胞生物學(大學部生技學程)
生物資訊學暨實習(大學部生科系)
生命科學與生物資訊趣談(大學通識課程)
生物化學(食生系)
散彈槍定序原理與實習(基資所)
功能性生物學(基資所)
生醫大數據特論(一、二)(基資所)
微生物遺傳與基因體特論(一、二)(基資所)
應用基因體學及生物資訊學暨實習(基資所)
專題討論 (基資所)
專題研究E (醫科學程)

著作

期刊論文 (∗Corresponding author)
Lee YL, Liu KM, Chang HL, Liao YC, Lin JS, Kung FY, Ho CM, Lin KH, Chen YT. The evolutionary trend and genomic features of an emerging lineage of Elizabethkingia anophelis strains in Taiwan. Microbiol Spectr. 2022 [online] Hong YP, Wang YW, Chen BH, Song HY, Chiou CS, Chen YT. RamAp, an efflux pump regulator carried by an IncHI2 plasmid. Antimicrob Agents Chenother. 2021 [Epub ahead of print] Hong YP, Chen YT, Wang YW, Chen BH, Teng RH, Chen YS, Chiou CS. Integrative and conjugative element-mediated azithromycin resistance in multi drug-resistant Salmonella enterica serovar Albany. Antimicrob Agents Chemother. 2021 [Epub ahead of print] Lee YL, Liu KM, Chang HL, Lin JS, Kung FY, Ho CM, Lin KS, Chen YT. A dominant strain of Elizabethkingia anophelis emerged from hospital water system to cause a three-year outbreak in a respiratory care center. J Hosp Infect. 2021. 108:43-51. PubMed PMID33157171. Lu MC, Chen YT, Tang HL, Liu YY, Chen BH, Wang YW, Chen YS, Teng RH, Hong YP, Chiou CS, Chiang MK, Lai YC. Transmission and evolution of OXA-48-producing Klebsiella pneumoniae ST11 in a single hospital in Taiwan. J Antimicrob Chemother. 2020 Feb 1;75(2):318-326. doi: 10.1093/jac/dkz431. PubMed PMID:31665400. Liu KM, Chang HL, Hsu MH, Lin YZ, Lee YL, Chen YT. Complete Genome Sequencing of Elizabethkingia sp. Strain 2-6. Microbiol Resour Announc. 2019 Oct 31;8(44). pii: e00805-19. doi: 10.1128/MRA.00805-19. PubMed PMID: 31672739; PubMed Central PMCID: PMC6953514. Yao-Chen Wang, Hui-Ling Tang, Yu-Chieh Liao, Chien-Shun Chiou, Ying-Tsong Chen, Ming-Ko Chiang, Min-Chi Lu, and Yi-Chyi Lai :Co-carriage of distinct bla_KPC-2and bla_OXA-48 plasmids in a single ST11 carbapenem-resistant Klebsiella pneumoniae isolate. Antimicrobial Agents and Chemotherapy(2019) Dou HY, Lin CH, Chen YY, Yang SJ, Chang JR, Wu KM, Chen YT, Chin PJ, Liu YM, Su IJ, Tsai SF: Lineage-specific SNPs for genotyping of Mycobacterium tuberculosis clinical isolates. Scientific Reports(2017) Chiou CS, Chen YT, Wang YW, Liu YY, Kuo HC, Tu YH, Lin AC, Liao YS, Hong YP :Dissemination of mcr-1-Carrying Plasmids among Colistin-Resistant Salmonella Strains from Humans and Food-Producing Animals in Taiwan. Antimicrobial Agents and Chemotherapy(2017) Lu MC, Chen YT, Chiang MK, Wang YC, Hsiao PY, Huang YJ, Lin CT, Cheng CC, Liang CL, Lai YC: Colibactin contributes to the hyper virulence of pks+ K1 CC23 Klebsiella pneumoniae in mouse meningitis infections. Frontiers in Cellular and Infection Microbiology(2017) Chen YT, Lai YC, Tan MC, Hsieh LY, Wang JT, Shiau YR, Wang HY, Lin AC, Lai JF, Huang IW, Lauderdale TL: Prevalence and characteristics of pks genotoxin gene cluster-positive clinical Klebsiella pneumoniae isolates in Taiwan. Scientific Reports(2017) Horng-Yunn Dou, Yih-Yuan Chen, Ying-Tsong Chen, Jia-Ru Chang, Chien- Hsing Lin, Keh-Ming Wu, Ming-Shian Lin, Ih-Jen Su and Shih-Feng Tsai: Genomics Study of Mycobacterium tuberculosis Strains from Different Ethnic Populations in Taiwan. Evolutionary Bioinformatics(2016) Chen YT, Siu LK, Tsai YK, Lin FM, Koh TH, Chen JH: A Common Flanking Region in Promiscuous Plasmids Encoding blaNDM-1 in Klebsiella pneumoniae Isolated in Singapore. Microbial Drug Resistance(2016) Huang TW, Lauderdale TL, Liao TL, Hsu MC, Chang FY, Chang SC, Khong WX, Ng OT, Chen YT, Kuo SC, Chen TL, Mu JJ, Tsai SF: Effective transfer of a 47 kb NDM-1-positive plasmid among Acinetobacter species. Journal of Antimicrobial Chemotherapy(2015) Chang JW, Hou MM, Hsieh JJ, Cheung YC, Wang HM, Chen JS, Wang CH,Chen CH, Yeh KY, Ou LY, Hsieh CH, Wu HDI, Chen YT, Chang IC, Huang SF: Early radiographic response to epidermal growth factor receptor- tyrosine kinase inhibitor in non-small cell lung cancer patients with epidermal growth factor receptor mutations: A prospective study. Biomedical Journa(2015) Chen CJ, Wu TL, Chen YT, Fung CP, Chuang YC, Lin JC, and Siu LK: Closely related NDM-1-encoding plasmids from Escherichia coli and Klebsiella pneumoniae in Taiwan. PlosONE(2014) Tang HJ, Chen YT, Chiang T, Fung CP, Chuang YC, Siu LK: Identification of the first imported KPC-3 Klebsiella pneumoniae from the USA to Taiwan. International Journal of Antimicrobial Agents(2014) Lai YC, Lin AC, Chiang MK, Dai YH, Hsu CC, Lu MC, Liau CY, and Chen YT: Genotoxic Klebsiella pneumoniae in Taiwan. PlosONE(2014) Chen YT, Lin JC, Fung CP, Lu PL, Chuang YC, Wu TL, Siu LK: KPC-2-encoding plasmids from Escherichia coli and Klebsiella pneumoniae in Taiwan. Journal of Antimicrobial Chemotherapy Lai YC, Lin AC, Chiang MK, Dai YH, Hsu CC, Lu MC, Liau CY, and Chen YT. Genotoxic Klebsiella pneumoniae in Taiwan. PlosONE. 2014. 9:e96292. Chen YT, Lin JC, Fung CP, Lu PL, Chuang YC, Wu TL, Siu LK. KPC-2-encoding plasmids from Escherichia coli and Klebsiella pneumoniae in Taiwan. Journal of Antimicrobial Chemotherapy. 2013. 69:628-631. Huang TW, Wang JT, Lauderdale TL, Liao TL, Lai JF, Tan MJ, Lin AC, Chen YT, Tsai SF, Chang SC. Complete sequences of two plasmids in an NDM-1 positive Klebsiella oxytoca isolated from Taiwan. Antimicrobial Agents and Chemotherapy. 2013. 57:4072-4076. Huang TW, Chen TL, Chen YT, Lauderdale TL, Liao TL, Lee YT, Chen CP, Liu YM, Lin AC, Chang YH, Wu KM, Kirby R, Lai JF, Tan, MC, Siu, LK, Chang CM, Fung CP, Tsai SF. Copy Number Change of the NDM-1 Sequence in a Multidrug-Resistant Klebsiella pneumoniae Clinical Isolate. PlosONE. 2013. 8:e62774. Chen YT, Lin AC, Siu LK, Koh TH. Sequence of closely related plasmids encoding blaNDM-1 in two unrelated Klebsiella pneumoniae isolates in Singapore. PlosONE. 2012. 7:e48737. Lin AC, Liao TL, Lin YC, Lai YC, Lu MC, Chen YT. Complete Genome Sequence of Klebsiella pneumoniae 1084, a Hypermucoviscosity-negative K1 Clinical Strain. Journal of Bacteriology. 2012. 194:6316. Liao TL, Chen SY, Lin AC, Huang TW, Lauderdale TL, Tsai SF, and Chen YT. Complete genome sequence of Klebsiella oxytoca E718, a New Delhi Metallo-beta-lactamase-1-producing nosocomial strain. Journal of Bacteriology. 2012. 194:5454. Huang SH, Wang CK, Peng HL, Wu CC, Chen YT, Hong YM, and Lin CT. Role of the small RNA RyhB in the Fur regulon in mediating the capsular polysaccharide biosynthesis and iron acquisition systems in Klebsiella pneumoniae. BMC Microbiology. 2012. 12:148. Huang TW, Chen FJ, Miu WC, Liao TL, Lin AC, Huang IW, Wu KM, Tsai SF, Chen YT, and Lauderdale TL. Complete Genome Sequence of Staphylococcus aureus M013, a pvl-positive ST59:SCCmec V Strain Isolated in Taiwan. Journal of Bacteriology. 2012. 194:1256-1257. Chen YT, Chang WC J, Liu HP, Yu TF, Chiu YT, Hsieh JJ, Chen YT, Chen YR, Wu I HD, Huang SF. Clinical implications of high MET gene dosage in non-small cell lung cancer patients without prior tyrosine kinase inhibitor treatment. Journal of Thoracic Oncology. 2011. 6:2027-2035. Chang JR, Lin CH, Tsai SF, Su IJ, Tseng FC, Chen YT, Chiueh TS, Sun JR, Huang TS, Chen YS, and Dou HR. Genotypic analysis of genes associated with transmission and drug resistance in the Beijing lineage of Mycobacterium tuberculosis. Clinical Microbiology and Infection. 2011. 17:1391-1396. Hoang KC, Lai TH, Lin CS, Chen YT, and Liau CY.The Chitinolytic Activities of Streptomyces sp. TH-11. International Journal of Molecular Sciences. 2011. 12:56-65. Liu HP, Wu HDI, Chang JWC, MD, Wu YC, Yang HY, Chen YT, Hsieh WY, Chen YT, Chen YR, Huang SF. Prognostic implications of EGFR and KRAS gene mutations, and EGFR gene copy numbers in Surgically Resectable Non-Small Cell Lung Cancer Patients in Taiwan. Journal of Thoracic Oncology. 2010. 5:1175-1184. Tang HL, Chiang MK, Liou WJ, Chen YT, Peng HL, Chiou CS, Liu KS, Lu MC, Tung KC and Lai YC. Correlation between Klebsiella pneumoniae carrying pLVPK-derived loci and abscess formation. European Journal of Clinical Microbiology & Infectious Diseases. 2010. 29:689-698. Shu HY, Fung CP, Liu, YM, Wu, KM, Chen YT, Li LH, Liu TT, Kirby R, and Tsai SF. Genetic diversity of capsular polysaccharide biosynthesis in Klebsiella pneumoniae clinical isolates. Microbiology. 2009. 155:4170-4183. Wu KM, Li LH, Yan JJ, Tsao N, Liao TL, Tsai HC, Fung CP, Chen HJ, Liu YM, Wang JT, Fang CT, Chang SC, Shu HY, Liu TT, Chen YT, Shiau YR, Lauderdale TL, Su IJ, Kirby R and Tsai SF. Genome Sequencing and Comparative Analysis of Klebsiella pneumoniae NTUH-K2044, a Strain Causing Liver Abscess and Meningitis. Journal of Bacteriology. 2009. 191:4492-4501. Chen YT*, Liao TL, Liu YM, Lauderdale TL, Yan JJ, and Tsai SF. Mobilization of qnrB2 and ISCR1 in Plasmids. Antimicrobial Agents and Chemotherapy. 2009. 53:1235-1237.

期刊論文 (∗Corresponding author)

Lee YL, Liu KM, Chang HL, Liao YC, Lin JS, Kung FY, Ho CM, Lin KH, Chen YT*. The evolutionary trend and genomic features of an emerging lineage of Elizabethkingia anophelis strains in Taiwan. Microbiol Spectr. 2022 [online]
Hong YP, Wang YW, Chen BH, Song HY, Chiou CS, Chen YT*. RamAp, an efflux pump regulator carried by an IncHI2 plasmid. Antimicrob Agents Chenother. 2021 [Epub ahead of print]
Hong YP, Chen YT, Wang YW, Chen BH, Teng RH, Chen YS, Chiou CS*. Integrative and conjugative element-mediated azithromycin resistance in multi drug-resistant Salmonella enterica serovar Albany. Antimicrob Agents Chemother. 2021 [Epub ahead of print]
Lee YL, Liu KM, Chang HL, Lin JS, Kung FY, Ho CM, Lin KS, Chen YT*. A dominant strain of Elizabethkingia anophelis emerged from hospital water system to cause a three-year outbreak in a respiratory care center. J Hosp Infect. 2021. 108:43-51. PubMed PMID33157171.
Lu MC, Chen YT, Tang HL, Liu YY, Chen BH, Wang YW, Chen YS, Teng RH, Hong YP, Chiou CS, Chiang MK, Lai YC*. Transmission and evolution of OXA-48-producing Klebsiella pneumoniae ST11 in a single hospital in Taiwan. J Antimicrob Chemother. 2020 Feb 1;75(2):318-326. doi: 10.1093/jac/dkz431. PubMed PMID:31665400.
Liu KM, Chang HL, Hsu MH, Lin YZ, Lee YL, Chen YT*. Complete Genome Sequencing of Elizabethkingia sp. Strain 2-6. Microbiol Resour Announc. 2019 Oct 31;8(44). pii: e00805-19. doi: 10.1128/MRA.00805-19. PubMed PMID: 31672739; PubMed Central PMCID: PMC6953514.
Yao-Chen Wang, Hui-Ling Tang, Yu-Chieh Liao, Chien-Shun Chiou, Ying-Tsong Chen, Ming-Ko Chiang, Min-Chi Lu, and Yi-Chyi Lai :Co-carriage of distinct bla_KPC-2and bla_OXA-48 plasmids in a single ST11 carbapenem-resistant Klebsiella pneumoniae isolate. Antimicrobial Agents and Chemotherapy(2019)
Dou HY, Lin CH, Chen YY, Yang SJ, Chang JR, Wu KM, Chen YT, Chin PJ, Liu YM, Su IJ, Tsai SF: Lineage-specific SNPs for genotyping of Mycobacterium tuberculosis clinical isolates. Scientific Reports(2017)
Chiou CS, Chen YT, Wang YW, Liu YY, Kuo HC, Tu YH, Lin AC, Liao YS, Hong YP :Dissemination of mcr-1-Carrying Plasmids among Colistin-Resistant Salmonella Strains from Humans and Food-Producing Animals in Taiwan. Antimicrobial Agents and Chemotherapy(2017)
Lu MC, Chen YT, Chiang MK, Wang YC, Hsiao PY, Huang YJ, Lin CT, Cheng CC, Liang CL, Lai YC: Colibactin contributes to the hyper virulence of pks+ K1 CC23 Klebsiella pneumoniae in mouse meningitis infections. Frontiers in Cellular and Infection Microbiology(2017)
Chen YT, Lai YC, Tan MC, Hsieh LY, Wang JT, Shiau YR, Wang HY, Lin AC, Lai JF, Huang IW, Lauderdale TL: Prevalence and characteristics of pks genotoxin gene cluster-positive clinical Klebsiella pneumoniae isolates in Taiwan. Scientific Reports(2017)
Horng-Yunn Dou, Yih-Yuan Chen, Ying-Tsong Chen, Jia-Ru Chang, Chien- Hsing Lin, Keh-Ming Wu, Ming-Shian Lin, Ih-Jen Su and Shih-Feng Tsai: Genomics Study of Mycobacterium tuberculosis Strains from Different Ethnic Populations in Taiwan. Evolutionary Bioinformatics(2016)
Chen YT, Siu LK, Tsai YK, Lin FM, Koh TH, Chen JH: A Common Flanking Region in Promiscuous Plasmids Encoding blaNDM-1 in Klebsiella pneumoniae Isolated in Singapore. Microbial Drug Resistance(2016)
Huang TW, Lauderdale TL, Liao TL, Hsu MC, Chang FY, Chang SC, Khong WX, Ng OT, Chen YT, Kuo SC, Chen TL, Mu JJ, Tsai SF: Effective transfer of a 47 kb NDM-1-positive plasmid among Acinetobacter species. Journal of Antimicrobial Chemotherapy(2015)
Chang JW, Hou MM, Hsieh JJ, Cheung YC, Wang HM, Chen JS, Wang CH,Chen CH, Yeh KY, Ou LY, Hsieh CH, Wu HDI, Chen YT, Chang IC, Huang SF: Early radiographic response to epidermal growth factor receptor- tyrosine kinase inhibitor in non-small cell lung cancer patients with epidermal growth factor receptor mutations: A prospective study. Biomedical Journa(2015)
Chen CJ, Wu TL, Chen YT, Fung CP, Chuang YC, Lin JC, and Siu LK: Closely related NDM-1-encoding plasmids from Escherichia coli and Klebsiella pneumoniae in Taiwan. PlosONE(2014)
Tang HJ, Chen YT, Chiang T, Fung CP, Chuang YC, Siu LK: Identification of the first imported KPC-3 Klebsiella pneumoniae from the USA to Taiwan. International Journal of Antimicrobial Agents(2014)
Lai YC, Lin AC, Chiang MK, Dai YH, Hsu CC, Lu MC, Liau CY, and Chen YT: Genotoxic Klebsiella pneumoniae in Taiwan. PlosONE(2014)
Chen YT, Lin JC, Fung CP, Lu PL, Chuang YC, Wu TL, Siu LK: KPC-2-encoding plasmids from Escherichia coli and Klebsiella pneumoniae in Taiwan. Journal of Antimicrobial Chemotherapy
Lai YC, Lin AC, Chiang MK, Dai YH, Hsu CC, Lu MC, Liau CY, and Chen YT*. Genotoxic Klebsiella pneumoniae in Taiwan. PlosONE. 2014. 9:e96292.
Chen YT*, Lin JC, Fung CP, Lu PL, Chuang YC, Wu TL, Siu LK*. KPC-2-encoding plasmids from Escherichia coli and Klebsiella pneumoniae in Taiwan. Journal of Antimicrobial Chemotherapy. 2013. 69:628-631.
Huang TW, Wang JT, Lauderdale TL, Liao TL, Lai JF, Tan MJ, Lin AC, Chen YT*, Tsai SF, Chang SC*. Complete sequences of two plasmids in an NDM-1 positive Klebsiella oxytoca isolated from Taiwan. Antimicrobial Agents and Chemotherapy. 2013. 57:4072-4076.
Huang TW, Chen TL, Chen YT*, Lauderdale TL, Liao TL, Lee YT, Chen CP, Liu YM, Lin AC, Chang YH, Wu KM, Kirby R, Lai JF, Tan, MC, Siu, LK, Chang CM, Fung CP, Tsai SF. Copy Number Change of the NDM-1 Sequence in a Multidrug-Resistant Klebsiella pneumoniae Clinical Isolate. PlosONE. 2013. 8:e62774.
Chen YT*, Lin AC, Siu LK, Koh TH. Sequence of closely related plasmids encoding blaNDM-1 in two unrelated Klebsiella pneumoniae isolates in Singapore. PlosONE. 2012. 7:e48737.
Lin AC, Liao TL, Lin YC, Lai YC, Lu MC, Chen YT*. Complete Genome Sequence of Klebsiella pneumoniae 1084, a Hypermucoviscosity-negative K1 Clinical Strain. Journal of Bacteriology. 2012. 194:6316.
Liao TL, Chen SY, Lin AC, Huang TW, Lauderdale TL, Tsai SF, and Chen YT*. Complete genome sequence of Klebsiella oxytoca E718, a New Delhi Metallo-beta-lactamase-1-producing nosocomial strain. Journal of Bacteriology. 2012. 194:5454.
Huang SH, Wang CK, Peng HL, Wu CC, Chen YT*, Hong YM, and Lin CT. Role of the small RNA RyhB in the Fur regulon in mediating the capsular polysaccharide biosynthesis and iron acquisition systems in Klebsiella pneumoniae. BMC Microbiology. 2012. 12:148.
Huang TW, Chen FJ, Miu WC, Liao TL, Lin AC, Huang IW, Wu KM, Tsai SF, Chen YT*, and Lauderdale TL*. Complete Genome Sequence of Staphylococcus aureus M013, a pvl-positive ST59:SCCmec V Strain Isolated in Taiwan. Journal of Bacteriology. 2012. 194:1256-1257.
Chen YT*, Chang WC J, Liu HP, Yu TF, Chiu YT, Hsieh JJ, Chen YT, Chen YR, Wu I HD, Huang SF*. Clinical implications of high MET gene dosage in non-small cell lung cancer patients without prior tyrosine kinase inhibitor treatment. Journal of Thoracic Oncology. 2011. 6:2027-2035.
Chang JR, Lin CH, Tsai SF, Su IJ, Tseng FC, Chen YT*, Chiueh TS, Sun JR, Huang TS, Chen YS, and Dou HR*. Genotypic analysis of genes associated with transmission and drug resistance in the Beijing lineage of Mycobacterium tuberculosis. Clinical Microbiology and Infection. 2011. 17:1391-1396.
Hoang KC, Lai TH, Lin CS, Chen YT*, and Liau CY*.The Chitinolytic Activities of Streptomyces sp. TH-11. International Journal of Molecular Sciences. 2011. 12:56-65.
Liu HP, Wu HDI, Chang JWC, MD, Wu YC, Yang HY, Chen YT*, Hsieh WY, Chen YT, Chen YR, Huang SF*. Prognostic implications of EGFR and KRAS gene mutations, and EGFR gene copy numbers in Surgically Resectable Non-Small Cell Lung Cancer Patients in Taiwan. Journal of Thoracic Oncology. 2010. 5:1175-1184.
Tang HL, Chiang MK, Liou WJ, Chen YT*, Peng HL, Chiou CS, Liu KS, Lu MC, Tung KC and Lai YC*. Correlation between Klebsiella pneumoniae carrying pLVPK-derived loci and abscess formation. European Journal of Clinical Microbiology & Infectious Diseases. 2010. 29:689-698.
Shu HY, Fung CP, Liu, YM, Wu, KM, Chen YT*, Li LH, Liu TT, Kirby R, and Tsai SF*. Genetic diversity of capsular polysaccharide biosynthesis in Klebsiella pneumoniae clinical isolates. Microbiology. 2009. 155:4170-4183.
Wu KM, Li LH, Yan JJ, Tsao N, Liao TL, Tsai HC, Fung CP, Chen HJ, Liu YM, Wang JT, Fang CT, Chang SC, Shu HY, Liu TT, Chen YT*, Shiau YR, Lauderdale TL, Su IJ, Kirby R* and Tsai SF. Genome Sequencing and Comparative Analysis of Klebsiella pneumoniae NTUH-K2044, a Strain Causing Liver Abscess and Meningitis. Journal of Bacteriology. 2009. 191:4492-4501.
Chen YT*, Liao TL, Liu YM, Lauderdale TL, Yan JJ, and Tsai SF. Mobilization of qnrB2 and ISCR1 in Plasmids. Antimicrobial Agents and Chemotherapy. 2009. 53:1235-1237.

研討會論文 (*Invited speaker)
YT Chen, CA Liao, XY Huang, AC Lin, TL Lauderdale: Identification and genomic analyses of an emerging virulent Klebsiella pneumoniae K62 clone in Taiwan. The 41th Annual Meeting of the Molecular Biology Society of Japan Yokohama/Japan Ying-Tsong Chen, Tsai-Ling Lauderdale, Xin-Ying Huang, Ann-Chi Lin: Population genetics studies of Klebsiella pneumoniae genotoxic K62 type in Taiwan. 4th Annual Microbiology & Infectious Diseases Asia Congress 7th Annual Next Generation Sequencing & Clinical Diagnostics Asia Congress 5th Annual Single Cell Analysis Asia Congress Singapore Yu-Han Liu, Ann-Chi Li, Chun-Hong Chen, Ying-Tsong Chen: Genomics Studies on the Ae. albopictus mitochondria. IMGM Poster Day NHRI/Taiwan XY Huang, AC Lin, TL Lauderdale, YT Chen: Complete Sequencing and Analyses of a Genotoxic Klebsiella pneumoniae K62 strain. 3rd Annual Microbiology & Infectious Diseases Asia Congress / 6th Annual Next Generation Sequencing Asia CongressSingapore YT Chen: 克雷白氏肺炎菌的基因體學研究(invited speech). 2016農業暨生物資訊分析前瞻與新知研討會 YT Chen: 基因毒性與台灣的克雷白氏肺炎菌(invited speech). 2015細菌學研討會洪義閔，陳盈璁: 克雷白氏肺炎桿菌基因體小島模組間交互作用與功能之探討. 2015細菌學研討會 YT Chen: Genotoxic Klebsiella pneumoniae in Taiwan (invited speech). International Symposium on Evolutionary Genomics and Bioinformatics YT Chen: Functional Genomics Studies on Genotoxic Klebsiella pneumoniae in Taiwan (invited speech). 2014 Life Taiwan User Conference -The future of laboratory developed testing – The total solution powered by Roche TL Liao; TW Huang; KM Wu; CT Lee; YM Liu; AC Lin; YT Chen; TT Liu; N Bisharat; LI Hor; SF Tsai: A single chromosome of 5.2 Mb in Vibrio vulnificus biotype 3 strain CECT7356. IMGM Poster Day NHRI/Taiwan YC Lai; AC Lin; YT Chen: Genotoxicity of Klebsiella pneumoniae in Taiwan. IMGM Poster Day NHRI/Taiwan 洪義閔，黃意真，張詠鈞，賴怡琪，林靖婷，陳盈璁: 克雷白氏肺炎桿菌基因體小島KPHPI208的功能性研究. 2014細菌學研討會 Genotoxicity of Klebsiella pneumoniae in Taiwan (2014) 2014 IMGM Poster Party, IMGM, NHRI, Taiwan A single chromosome of 5.2 Mb in Vibrio vulnificus biotype 3 strain CECT7356 (2014) IMGM Poster Party, IMGM, NHRI, Taiwan Complete genome sequence of Klebsiella pneumoniae 1084 and the identification of a genotoxin-encoding virulence genomic island (2013) 2013 IMGM Poster Party, IMGM, NHRI, Taiwan Missing pieces in Klebsiella pneumoniae genomes (2012) 2012第廿八屆生物夏令營 Towards a database of antimicrobial resistance genes (2012) 2012 UST-UCSD I-RICE Symposium and Joint Biomedical Informatics Symposium between National Yang-Ming University (NYMU), and University of California, San Diego (UCSD) Using nalidixic acid-susceptibility and borderline resistance to identify plasmid-mediated quinolone resistance (PMQR) in Salmonella in Taiwan. (2012) 3rd ASM Conference on Antimicrobial Resistance in Zoonotic Bacteria and Foodborne Pathogens in Animals, Humans and the Environment, France. June 26-30. Multiplex sequencing of antimicrobial resistance genes by PGM. (2012) 3rd ASM Conference on Antimicrobial Resistance in Zoonotic Bacteria and Foodborne Pathogens in Animals, Humans and the Environment, France. June 26-30. Application of 454 in Bacterial Genomics (2012) 生物資訊研究中心學術研討會國立交通大學 (受邀演講) Complete Sequencing and Annotation of Klebsiella oxytoca E718. (2012) 轉譯醫學基因體蛋白質體之臨床應用學術研討, TaiChung, Taiwan. May 12. Missing Pieces in Klebsiella pneumoniae genomes. (2012) 轉譯醫學基因體蛋白質體之臨床應用學術研討, TaiChung, Taiwan. May 12. Complete Sequencing and Annotation of MRSA strain M013 from Taiwan. (2012) 轉譯醫學基因體蛋白質體之臨床應用學術研討, TaiChung, Taiwan. May 12. Comparative analysis of three NDM-1 positive plasmids using personal sequencers. (2012) 2012 NHRI Research Day, Zhunan, Taiwan. March 22. 遺失的克雷白氏桿菌DNA序列 (2011) 2011年克雷白氏桿菌學術研討會國家衛生研究院感染症與疫苗研究所與國防醫學院 (受邀演講) PMQR in Taiwan (2010) 系統生物學研討會國家衛生研究院 (專題演講)

研討會論文 (*Invited speaker)

YT Chen, CA Liao, XY Huang, AC Lin, TL Lauderdale: Identification and genomic analyses of an emerging virulent Klebsiella pneumoniae K62 clone in Taiwan. The 41th Annual Meeting of the Molecular Biology Society of Japan Yokohama/Japan
Ying-Tsong Chen, Tsai-Ling Lauderdale, Xin-Ying Huang, Ann-Chi Lin: Population genetics studies of Klebsiella pneumoniae genotoxic K62 type in Taiwan. 4th Annual Microbiology & Infectious Diseases Asia Congress 7th Annual Next Generation Sequencing & Clinical Diagnostics Asia Congress 5th Annual Single Cell Analysis Asia Congress Singapore
Yu-Han Liu, Ann-Chi Li, Chun-Hong Chen, Ying-Tsong Chen: Genomics Studies on the Ae. albopictus mitochondria. IMGM Poster Day NHRI/Taiwan
XY Huang, AC Lin, TL Lauderdale, YT Chen: Complete Sequencing and Analyses of a Genotoxic Klebsiella pneumoniae K62 strain. 3rd Annual Microbiology & Infectious Diseases Asia Congress / 6th Annual Next Generation Sequencing Asia CongressSingapore
YT Chen: 克雷白氏肺炎菌的基因體學研究(invited speech). 2016農業暨生物資訊分析前瞻與新知研討會
YT Chen: 基因毒性與台灣的克雷白氏肺炎菌(invited speech). 2015細菌學研討會
洪義閔，陳盈璁: 克雷白氏肺炎桿菌基因體小島模組間交互作用與功能之探討. 2015細菌學研討會
YT Chen: Genotoxic Klebsiella pneumoniae in Taiwan (invited speech). International Symposium on Evolutionary Genomics and Bioinformatics
YT Chen: Functional Genomics Studies on Genotoxic Klebsiella pneumoniae in Taiwan (invited speech). 2014 Life Taiwan User Conference -The future of laboratory developed testing – The total solution powered by Roche
TL Liao; TW Huang; KM Wu; CT Lee; YM Liu; AC Lin; YT Chen; TT Liu; N Bisharat; LI Hor; SF Tsai: A single chromosome of 5.2 Mb in Vibrio vulnificus biotype 3 strain CECT7356. IMGM Poster Day NHRI/Taiwan
YC Lai; AC Lin; YT Chen: Genotoxicity of Klebsiella pneumoniae in Taiwan. IMGM Poster Day NHRI/Taiwan
洪義閔，黃意真，張詠鈞，賴怡琪，林靖婷，陳盈璁: 克雷白氏肺炎桿菌基因體小島KPHPI208的功能性研究. 2014細菌學研討會
Genotoxicity of Klebsiella pneumoniae in Taiwan (2014) 2014 IMGM Poster Party, IMGM, NHRI, Taiwan
A single chromosome of 5.2 Mb in Vibrio vulnificus biotype 3 strain CECT7356 (2014) IMGM Poster Party, IMGM, NHRI, Taiwan
Complete genome sequence of Klebsiella pneumoniae 1084 and the identification of a genotoxin-encoding virulence genomic island (2013) 2013 IMGM Poster Party, IMGM, NHRI, Taiwan
Missing pieces in Klebsiella pneumoniae genomes (2012) 2012第廿八屆生物夏令營
Towards a database of antimicrobial resistance genes (2012) 2012 UST-UCSD I-RICE Symposium and Joint Biomedical Informatics Symposium between National Yang-Ming University (NYMU), and University of California, San Diego (UCSD)
Using nalidixic acid-susceptibility and borderline resistance to identify plasmid-mediated quinolone resistance (PMQR) in Salmonella in Taiwan. (2012) 3rd ASM Conference on Antimicrobial Resistance in Zoonotic Bacteria and Foodborne Pathogens in Animals, Humans and the Environment, France. June 26-30.
Multiplex sequencing of antimicrobial resistance genes by PGM. (2012) 3rd ASM Conference on Antimicrobial Resistance in Zoonotic Bacteria and Foodborne Pathogens in Animals, Humans and the Environment, France. June 26-30.
Application of 454 in Bacterial Genomics (2012) 生物資訊研究中心學術研討會國立交通大學 (受邀演講)
Complete Sequencing and Annotation of Klebsiella oxytoca E718. (2012) 轉譯醫學基因體蛋白質體之臨床應用學術研討, TaiChung, Taiwan. May 12.
Missing Pieces in Klebsiella pneumoniae genomes. (2012) 轉譯醫學基因體蛋白質體之臨床應用學術研討, TaiChung, Taiwan. May 12.
Complete Sequencing and Annotation of MRSA strain M013 from Taiwan. (2012) 轉譯醫學基因體蛋白質體之臨床應用學術研討, TaiChung, Taiwan. May 12.
Comparative analysis of three NDM-1 positive plasmids using personal sequencers. (2012) 2012 NHRI Research Day, Zhunan, Taiwan. March 22.
遺失的克雷白氏桿菌DNA序列 (2011) 2011年克雷白氏桿菌學術研討會國家衛生研究院感染症與疫苗研究所與國防醫學院 (受邀演講)
PMQR in Taiwan (2010) 系統生物學研討會國家衛生研究院 (專題演講)

陳盈璁

教授

研究方向:Microbial Genomics,Functional Genomics,Comparative Genomics,Plasmids

陳玉婷

yuting@dragon.nchu.edu.tw (04)22840338 #7021(辦公室) #7151(實驗室) 動植物防檢疫大樓7樓702室

榮譽

時間	內容
2001	第十六屆生物醫學聯合年會生物化學及分子生物學學會最佳壁報論文獎
2000	第二屆中研院植物所壁報展優等壁報論文獎
2015	中興大學104學年度服務特優教師

簡要經歷

職稱	服務單位	起訖年月
副教授	中興大學基因體暨生物資訊學研究所	2019/08-present
助理教授	中興大學基因體暨生物資訊學研究所	2013/03-2019-07
組長	中興大學生物科技發展中心服務推廣組	2008/08 – 2009-03
助理教授	中興大學生物科技發展中心	2008/08 – 2009-03
專案助理教授	中興大學生物科技發展中心	2006/08 – 2008/07
兼任助理教授	醒吾技術學院通識教育中心	2005/09 – 2006/06
訪問學者	美國農業部	2005/03 – 2005/08
博士後研究員	中央研究院植物暨微生物研究所	2003/03 – 2006/07
博士	國防醫學大學生命科學研究所	1995/08 – 2003/02
碩士	大同大學化學工程研究所	1993/09 – 1995/06
學士	大同大學生物工程系	1989/09 – 1993/06

教學與研究

研究方向
分子生物學植物基因轉殖植物功能性基因體學生物能源

教授課程:

課程名稱
生物化學(農資院)、生物化學實習(農資院)、應用基因體學及生物資訊學暨實習(基資所)、進階生物資訊學暨實習(基資所)、資訊與生物(基資所)、植物基因選殖技術(生技碩)、植物基因轉殖特論(基資所)、基因體資料庫建構與分析(基資所)、功能性基因體學(基資所)、脂肪生物技術特論(基資所)

著作

期刊論文 (*Corresponding author)
Li JR, Liu CC, Sun CH, *Chen YT: Plant stress RNA-seq Nexus: a stress-specific transcriptome database in plant cells. BMC Genomics(2019) Chen YT^†, Chang CC^†, Chen CW, Chen KC, Chu YW: MADS-box gene classification in angiosperms by clustering and machine learning approaches. Front Genet(2019) Liu CH, Chen YT*, Hou MH, Hu NJ, Chen CS, Shaw JF: Crystallographic analysis of the Staphylococcus epidermidis* lipase involved in esterification in aqueous solution. Acta Cryst(2018) Chen YT^†, Hong PF^†, Wen L^†, Lin CT: Molecular cloning and characterization of a thioredoxin from Taiwanofungus camphorate.* Bot Stud(2014) Huang CY^†, Chen YT^†, Wen L^†, Sheu DC, Lin CT: A peroxiredoxin cDNA from Taiwanofungus camphorata: role of Cys31 in dimerization. Mol Biol Reports(2014) Chuang HH, Cheng CY, Chen YT, Shaw JF: Novel highly active recombinant glutaredoxin from Chlorella sorokiniana* T-89. J Agric Food Chem(2014) Chuang HH, Cheng CY, Chen YT, Shaw JF. (2014) Novel Highly Active Recombinant Glutaredoxin from Chlorella sorokiniana T-89. J Agric Food Chem. 2014 Jan 14. J Agric Food Chem. 2014 Jan 29;62(4):927-933. Huang CY#,Chen YT, Wen L#, Sheu DC, Lin CT. (2014) A peroxiredoxin cDNA from Taiwanofungus camphorata: role of Cys31 in dimerization. Mol Biol Rep. 41(1):155-164. Chen YT, Chin-Hui Shen, Wen-Dar Lin, Hsiu-An Chu, Bau-Lian Huang, Ching-I Kuo, Kai-Wun Yeh, Li-Chun Huang, and Ing-Feng Chang* (2013) Small RNAs of Sequoia sempervirens during rejuvenation and phase change. Plant Biology 15(1):27-36 (SCI) Ko CY, Lai YL, Liu WY, Lin CH, Chen YT, Chen LF, Lin TY, Shaw JF. (2012) Arabidopsis ENDO2: Its catalytic role and requirement of N-glycosylation for function. J Agric Food Chem. 60 (20), 5169–5179 (SCI) Chen PT, Chiang CJ, Chen YT, Lin HC, Liu CH, Chao YP, Shaw JF. (2012) Strategy for stable and high-level expression of recombinant trehalose synthase in Escherichia coli. J Agric Food Chem. 60 (23), 6063–6068 (SCI) Chu HA, Chang IF, Shen CH, Chen YT, Wang HT, Huang LC, and Yeh KW (2012) Photosynthetic properties and photosystem stoichiometry of in vitro-grown juvenile, adult, and rejuvenated Sequoia sempervirens (D. Don) Endl. Botanical Studies. 53:3.1 (SCI) Huang LC, Hsiao LJ, Pu SY, Kuo CI, Huang BL, Tseng TC, Huang HJ, Chen YT(2012) DNA Methylation and genome rearrangement characteristics of Phase change in cultured shoots of Sequoia sempervirens. Physiola Planta 145: 360-368.(SCI) Chang PC, Pan WJ, Chen CW, Chen YT and Chu YW (2012) DEsi: A design engine of siRNA that integrates SVMs prediction and feature filters. Biocat Agric Biotech 1: 129-134. Chuang HH, Chen PT, Wang WN, Chen YT, Shaw JF (2011) Functional proteomic analysis of rice bran esterases/lipases and characterization of a novel recombinant esterase. J Agric Food Chem. 2011 Mar 9;59(5):2019-25. Chang IF, Chen PJ, Shen CH, Hsieh TJ, Hsu YW, Huang BL, Kuo CI, Chen YT, Chu HA, Yeh KW, Huang LC (2010) Proteomic profiling of proteins associated with the rejuvenation of Sequoia sempervirens (D. Don) Endl. Proteome Science 8:64. Chen YT, Fang QS, Chiang CH, Yeh SD, Wu HW, Yu TA (2010) Transgenic Eustoma grandiflorum expressing the bar gene are resistant to herbicide Basta®. PCTOC: J Plant Biotech. 102 (3): 347-356. (SCI) Liau YJ, Chen YT, Lin CY, Huang JK, Lin CT (2010) Characterisation of 2-Cys peroxiredoxin isozyme (Prx1) from Taiwanofungus camphorata (Niu-chang-chih): Expression and enzyme properties. Food Chem. 119: 154-160. (SCI) Chen YT, Chen LFO, Shaw JF* (2008) Senescence associated genes in harvested broccoli florets, Plant Science 175, 137-144. (SCI) Chen YT, Chen HH, Uchimiya H, Chu MJ, Chiou YS, Shaw JF, Huang LC (2007) Prolonging the longevity of Cymbidium flowers through genetic transformation. Acta Horticulture. 738: 545-548. Lee, LC, Chen YT, Yen CC, Chiang TCY, Tang SJ, Lee GC* and Shaw JF* (2007) Altering the substrate specificity of Candida rugosa LIP4 by engineering the substrate binding sites. J. Agric. Food Chem. 55(13); 5103-5108. (SCI) Chen YT, Hsu LH, Huang IP, Tsai TC, Lee GC, and Shaw JF* (2007) Gene Cloning and Characterization of a Novel Recombinant Antifungal Chitinase from Papaya (Carica papaya) J. Agric. Food Chem. 55:714-722. (SCI) Wang YT, Yang CY, Chen YT, Lin Y and Shaw JF* (2004) Characterization of senescence-associated proteases in postharvest broccoli florets. Plant Physiol. Biochem. 42:663-670. (SCI) Chen LFO, Huang JY, Wang YH, Chen YT and Shaw JF* (2004) Ethylene insensitive and post-harvest yellowing retardation in mutant ethylene response sensor (boers) gene transformed broccoli (Brassica olercea var. italica) Mol. Breed. 14:199-213. (SCI) Yang CY, Chu FH, Wang YT, Chen YT, Yang SF, and Shaw JF* (2003) Novel broccoli 1-aminocyclopropane-1-carboxylate oxidase gene (Bo-ACO3) associated with the late stage of postharvest floret senescence. J. Agric. Food Chem. 51:2569-2575. (SCI) Chen YT, Lee IR, Yang CY, Wang YT, Yang SF, and Shaw JF* (2003) A novel papaya 1-aminocyclopropane-1-carboxylate oxidase gene (CP-ACO2) associated with late-stage senescence. Plant Science 164:531-540. (SCI) Lin CT, Lin MT, Chen YT and J.F. Shaw. 1995. The gene structure of Cu/Zn-superoxide dismutase from sweet potato. Plant Physiol. 108: 827-828. (SCI)* Lin CT, Lin MT, Chen YT and J.F. Shaw. 1995. Subunit interaction enhances enzyme activity and stability of cytosolic Cu-Zn-superoxide dismutase. Plant Mol. Biol. 28: 303-311. (SCI)*

期刊論文 (*Corresponding author)

Li JR, Liu CC, Sun CH, Chen YT*: Plant stress RNA-seq Nexus: a stress-specific transcriptome database in plant cells. BMC Genomics(2019)
Chen YT^†, Chang CC^†, Chen CW, Chen KC, Chu YW: MADS-box gene classification in angiosperms by clustering and machine learning approaches. Front Genet(2019)
Liu CH, Chen YT, Hou MH, Hu NJ, Chen CS*, Shaw JF*: Crystallographic analysis of the Staphylococcus epidermidis lipase involved in esterification in aqueous solution. Acta Cryst(2018)
Chen YT^†, Hong PF^†, Wen L^†, Lin CT*: Molecular cloning and characterization of a thioredoxin from Taiwanofungus camphorate. Bot Stud(2014)
Huang CY^†, Chen YT^†, Wen L^†, Sheu DC, Lin CT*: A peroxiredoxin cDNA from Taiwanofungus camphorata: role of Cys31 in dimerization. Mol Biol Reports(2014)
Chuang HH, Cheng CY, Chen YT*, Shaw JF*: Novel highly active recombinant glutaredoxin from Chlorella sorokiniana T-89. J Agric Food Chem(2014)
Chuang HH, Cheng CY, Chen YT, Shaw JF*. (2014) Novel Highly Active Recombinant Glutaredoxin from Chlorella sorokiniana T-89. J Agric Food Chem. 2014 Jan 14. J Agric Food Chem. 2014 Jan 29;62(4):927-933.
Huang CY#,Chen YT, Wen L#, Sheu DC, Lin CT*. (2014) A peroxiredoxin cDNA from Taiwanofungus camphorata: role of Cys31 in dimerization. Mol Biol Rep. 41(1):155-164.
Chen YT, Chin-Hui Shen, Wen-Dar Lin, Hsiu-An Chu, Bau-Lian Huang, Ching-I Kuo, Kai-Wun Yeh*, Li-Chun Huang*, and Ing-Feng Chang* (2013) Small RNAs of Sequoia sempervirens during rejuvenation and phase change. Plant Biology 15(1):27-36 (SCI)
Ko CY, Lai YL, Liu WY, Lin CH, Chen YT, Chen LF, Lin TY*, Shaw JF*. (2012) Arabidopsis ENDO2: Its catalytic role and requirement of N-glycosylation for function. J Agric Food Chem. 60 (20), 5169–5179 (SCI)
Chen PT, Chiang CJ, Chen YT, Lin HC, Liu CH, Chao YP*, Shaw JF*. (2012) Strategy for stable and high-level expression of recombinant trehalose synthase in Escherichia coli. J Agric Food Chem. 60 (23), 6063–6068 (SCI)
Chu HA, Chang IF, Shen CH, Chen YT, Wang HT, Huang LC*, and Yeh KW* (2012) Photosynthetic properties and photosystem stoichiometry of in vitro-grown juvenile, adult, and rejuvenated Sequoia sempervirens (D. Don) Endl. Botanical Studies. 53:3.1 (SCI)
Huang LC, Hsiao LJ, Pu SY, Kuo CI, Huang BL, Tseng TC, Huang HJ*, Chen YT(2012) DNA Methylation and genome rearrangement characteristics of Phase change in cultured shoots of Sequoia sempervirens. Physiola Planta 145: 360-368.(SCI)
Chang PC, Pan WJ, Chen CW, Chen YT and Chu YW* (2012) DEsi: A design engine of siRNA that integrates SVMs prediction and feature filters. Biocat Agric Biotech 1: 129-134.
Chuang HH, Chen PT, Wang WN, Chen YT*, Shaw JF* (2011) Functional proteomic analysis of rice bran esterases/lipases and characterization of a novel recombinant esterase. J Agric Food Chem. 2011 Mar 9;59(5):2019-25.
Chang IF, Chen PJ, Shen CH, Hsieh TJ, Hsu YW, Huang BL, Kuo CI, Chen YT, Chu HA, Yeh KW, Huang LC (2010) Proteomic profiling of proteins associated with the rejuvenation of Sequoia sempervirens (D. Don) Endl. Proteome Science 8:64.
Chen YT, Fang QS, Chiang CH, Yeh SD, Wu HW, Yu TA (2010) Transgenic Eustoma grandiflorum expressing the bar gene are resistant to herbicide Basta®. PCTOC: J Plant Biotech. 102 (3): 347-356. (SCI)
Liau YJ, Chen YT, Lin CY, Huang JK, Lin CT (2010) Characterisation of 2-Cys peroxiredoxin isozyme (Prx1) from Taiwanofungus camphorata (Niu-chang-chih): Expression and enzyme properties. Food Chem. 119: 154-160. (SCI)
Chen YT, Chen LFO, Shaw JF* (2008) Senescence associated genes in harvested broccoli florets, Plant Science 175, 137-144. (SCI)
Chen YT, Chen HH, Uchimiya H, Chu MJ, Chiou YS, Shaw JF, Huang LC (2007) Prolonging the longevity of Cymbidium flowers through genetic transformation. Acta Horticulture. 738: 545-548.
Lee, LC, Chen YT, Yen CC, Chiang TCY, Tang SJ, Lee GC* and Shaw JF* (2007) Altering the substrate specificity of Candida rugosa LIP4 by engineering the substrate binding sites. J. Agric. Food Chem. 55(13); 5103-5108. (SCI)
Chen YT, Hsu LH, Huang IP, Tsai TC, Lee GC, and Shaw JF* (2007) Gene Cloning and Characterization of a Novel Recombinant Antifungal Chitinase from Papaya (Carica papaya) J. Agric. Food Chem. 55:714-722. (SCI)
Wang YT, Yang CY, Chen YT, Lin Y and Shaw JF* (2004) Characterization of senescence-associated proteases in postharvest broccoli florets. Plant Physiol. Biochem. 42:663-670. (SCI)
Chen LFO, Huang JY, Wang YH, Chen YT and Shaw JF* (2004) Ethylene insensitive and post-harvest yellowing retardation in mutant ethylene response sensor (boers) gene transformed broccoli (Brassica olercea var. italica) Mol. Breed. 14:199-213. (SCI)
Yang CY, Chu FH, Wang YT, Chen YT, Yang SF, and Shaw JF* (2003) Novel broccoli 1-aminocyclopropane-1-carboxylate oxidase gene (Bo-ACO3) associated with the late stage of postharvest floret senescence. J. Agric. Food Chem. 51:2569-2575. (SCI)
Chen YT, Lee IR, Yang CY, Wang YT, Yang SF, and Shaw JF* (2003) A novel papaya 1-aminocyclopropane-1-carboxylate oxidase gene (CP-ACO2) associated with late-stage senescence. Plant Science 164:531-540. (SCI)
Lin CT, Lin MT, Chen YT and J.F. Shaw*. 1995. The gene structure of Cu/Zn-superoxide dismutase from sweet potato. Plant Physiol. 108: 827-828. (SCI)
Lin CT, Lin MT, Chen YT and J.F. Shaw*. 1995. Subunit interaction enhances enzyme activity and stability of cytosolic Cu-Zn-superoxide dismutase. Plant Mol. Biol. 28: 303-311. (SCI)

學術研討會論文 (*Invited speaker)
Lin TW, Kou YT, Liu CH, Lin WT, Chen YT: Build up the highest astaxanthin production platform by using optima cultural condition analysis of Chlorella. sp. DT and the tr ansgenic approach. 14^th International Symposium on Agricultural Biocatalysis and Biotechnology Liu CH, Chen YT, Chen CS, Shaw JF: Lipase cloned from Staphylococcus epidermidis: crystallization and X-ray crystallographic analysis. 13^th International Symposium on Agricultural Biocatalysis and Biotechnology Liu JH, Nien CY, Chang CW, Hong CS, Chang SW, Chen YT and Shaw JF: Contribution of surface residues on the thermostability of the trehalose synthase from Picrophilus torridus. 13^th International Symposium on Agricultural Biocatalysis and Biotechnology Liu CH, Chen PT, Hsu FY, Chen YT, Chen CS, Shaw JF: Thermal stable esterase (rGtEst1) of Geobacillus thermodnitrificans PS01.12^th Cross-Strait International Conference on Symposium on Plant Molecular Biology and Biotechnology ZengWW, Chen TC, Wang SY, Liu CH, Chen YT: Identification of an anti-proliferative 2,4-dimethoxy-6-methylbenzene- 1,3-diol from Antrodia cinnamomea. 12^th Cross-Strait International Conference on Symposium on Plant Molecular Biology and Biotechnology Liu JH, Chuang HH, Chen TW, Shaw JF, and Chen YT: Catalytic related amino acid of glutaredoxin from Chlorella sorokiniana 12^th Cross-Strait International Conference on Symposium on Plant Molecular Biology and Biotechnology Zeng WW, Wang SY, Liu CH, Chen YT: Identification of a dual-function phenolic compound with anti-oxidant and anti-proliferative activities in Antrodia cinnamome. 2016中草藥在抗老化植物新藥之應用趨勢研討會 Chiu CM, Chao HY, Chen YT: Physiological Function of GDSL-lipase in Rice (Oryza sativa). The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology Hsu FY, Liu CH, Chen YT*, Chen PT, Chen CS, Shaw JF: Gene analysis and Biochemical Characterization of a Novel Recombinant Lipase rGtLIP1 from Geobacillus thermodenitrificans PS01. The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology Chao HY, Chen YT: Rice GDSL Lipase may Promote Grain Yield and Salt Resistance. The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology Huang YH, Zeng WW, Wang WN, Chen YT*: Improvement of the Antioxidant Activity of Antrodia cinnamomea* by Medium Modification and Adding Methanolic Extract of Cinnamomum kanehirae The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology Kuo YT, Lee JH, Chen YT: Beta-Carotene Ketolase of Chlorella. sp. DT Cloning and Overexpression for Astaxanthin Production in Transgenic Plant. The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology Hsu-Han Chuang, Chen YT and Jei-Fu Shaw (2013) (Invited Lecture) Study the gene functions of rice lipases/esterases by using functional proteomics approaches. The 9th International Symposium on Agricultural Biocatalysis and Biotechnology. Piešťany, Slovak Republic, October 13 – 16, 2013. Lee JH, Chen YT, Chuang HH, Chiu JM (2012) Cloning and characterization cinnamyl alcohol dehydrogenase from Chlorella sorokiniana T89. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22. (Excellent Poster Award) Zeng WW, Wang WN, Shaw JF, and Chen YT (2012) Improvement of the antioxidant activity of Antrodia Cinnamomea by medium modification and adding methanolic extract of Cinnamomum kanehirae leaf. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22. (Excellent Poster Award) Cheng CY, Shaw JF, Chen YT (2012) Cloning and characterization of glutaredoxin from Chlorella sorokiniana T89. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22. (Excellent Poster Award) Chen PT, Chiang CJ, Chen YT, Lin HC, Liu CH, Chao YP and Shaw JF* (2012) Chromosome engineering Escherichia coli host for the efficient production of Picrophilus torridus trehalose synthase. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22. (Best Poster Award) Chuang HH, Liu CH, Chen YTand Shaw JF (2012) (Invited Lecture) Study rice estersaes/lipases by functional proteomics approach. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22. Jei-Fu Shaw* and Chen YT (2012) Biocatalysis in Agricultural Biotechnology. BIT’s 3rd Inaugural Symposium on Enzymes & Biocatalysis-2012 (SEB-2012), Xi’an, China. April, 25-28. Chuang HH, Chen YT and Shaw JF (2011) (Invited lecture) Functional proteomic analysis and characterization of a novel rice bran esterases/lipases. The 7th International Symposium on Agricultural Biocatalysis and Biotechnology. Kyoto, Japan. Oct 10-13. Bezirganoglu I, Chen YT, Chuang HH, Hwang SY, Shaw JF* (2010) Improve the resistance to Rhizoctonia solani of transgenic melon (Cucumis melo silver light L.) plants with overexpressing chitinases. The 6th International Symposium on Biocatalysis and Biotechnology. Seoul, Korea. Nov 17-19. Yu TA, Chen YT, Chiang CH, Wang PT, Chang YL, Shih HD, Yeh SD, Shaw JF (2010) (Invited lecture) Transgenic melon plants expressing antifungal AFP3 protein develop resistance to fungal diseases. The 6th International Symposium on Biocatalysis and Biotechnology. Seoul, Korea. Nov 17-19. Chuang HH, Chen YT, Shaw JF (2010) (Invited lecture) Characterization and application of the recombinant rice bran lipase. 2010 Lipid Science Division Symposium at the Annual Meeting of Korean Society of Food Science and Technology. Inchon, Korea. Jun 16-18. Bezirganoglu I, Chen YT, Chang YL, Shaw JF* (2009) Melon transformation using antifungal protein & chitinase gene to against fungal disease Rhizoctania Solani. The 5th International Symposium on Biocatalysis and Biotechnology. Taiwan. Nov 18-20. (Excellent Poster Award) Chen YT and Shaw JF (2008) (Invited lecture) NCHU/CUHK Bilateral Symposium on Plant Biotechnology. Dec 17-23, Taichung, Taiwan. Chen YT and Shaw JF (2007) (Invited Speech) Functional genes and biotechenology. The Sixth Cross-Strait Symposium on Plant Molecular Biology and Biotechnology. Jul. 3-7, Hong Kong, China Chen YT and J.F. Shaw (2007) (Organizer and Invited Speech) Papaya functional genomics and biotechnological application. 3rd Internatrional Symposium on Biocatalysis amd Biotechnology. Nov. 28-30, Taichung, Taiwan Lee LC, Chen YT, Yen CC, Tang SJ, Lee GC and Shaw JF (2007) Altering the Substrate Specificity of Candida rugosa LIP4 by Engineering the Substrate-Binding Sites. 3rd Internatrional Symposium on Biocatalysis and Biotechnology. Nov. 28-30, Taichung, Taiwan. Chen YT, and Shaw JF (2007) (Organizer and Invited Speech) Papaya functional genomics and biotechnological application. 3rd Internatrional Symposium on Biocatalysis amd Biotechnology. Nov. 28-30, Taichung, Taiwan Chen YT and Shaw JF (2007) (Invited Speech) The Application of Functional Genomics Study on Papaya and Its Implication in Fruit Industry. The International Symposium on Bio-industry Development and Post-graduate Workshop, Dec. 4-7, Taichung, Taiwan. Chou YF, Chen HH, Chen YT, Shaw JF (2006) (Invited oral presentation) Molecular characterization of three broccoli chloropyllase genes, differentially regulated by ethylene. 7th International Symposium on the Plant Hormone Ethylene. June 18-22, Pisa, Italy. Chen YT, Huang IP, Shu LH, Shaw JF (2006) Cloning and characterization of ethylene-upregualted chitinase from papaya. 7th International Symposium on the Plant Hormone Ethylene. June 18-22, Pisa, Italy. Chen YT, Chen HH, Uchimiya H, Chu MJ, Chiou YS, Shaw JF, Huang LC (2005) (Invited oral presentation) Prolonging the longevity of Cymbidium flowers through genetic transformation. Proceeding of ISHS on the 3rd International Symposium on Biotechnology of Temperate Fruit Crops and Tropic species. October 10-14, USA. Chen YT (2005) (Invited speech) Papaya fruit maturation and ripening associated gene. April 19, USDA, Beltsville, USA. Chen YT, Chou TL, Yang CY, Kao CY, Lai HY, Jian WT, Shaw JF (2004) (Invited oral presentation) Papaya fruit maturation and ripening associated gene. International Symposium on Plant Functional Genomics. WA-06, June 6-11, Verona, Italy. Chen YT, Chou TL, Yang CY, Kao CY, Lai HY, Jian WT, Shaw JF (2003) Papaya fruit maturation and ripening associated gene. International Symposium on Plant Functional Genomics. A17, Nov 17-19, Taipei, Taiwan. Chen YT, Lee IR, Yang CY, Shaw JF (2001) Differential expression of the 1-aminocyclopropane-1-carboxylate oxidase gene family of papaya. 第十六屆生物醫學聯合年會生物化學及分子生物學學會壁報論文 P99, Mar, 24-25, Taipei, Taiwan。 Chen YT and Shaw JF (2001) (Invited lecture) Papaya ACC oxidases. The 2nd Internationtional Symposium on Biotechnology of Tropical and Subtropical Species. Nov. 5-9.Taipei, Taiwan. Chen YT, Lee IR, Yang CY, Shaw JF (2000) Differential expression of the papaya 1-aminocyclopropane-1-carboxylate oxidase gene family. Symposium on Plant Sciences for 21st Century. C10. pp56. Nov. 9-10, Taipei, Taiwan. Yang CY, Lin Y, Chu FH, Chen YT, Lee YR, Shaw JF (2000) Senescemce associated genes of broccoli florets. Symposium on Plant Sciences for 21st Century. B5. pp34. Nov. 9-10, Taipei, Taiwan. Chen YT and Lin CT (1995) Purification and characterization of two isozymes of Cu/Zn-SOD from sweet potota tuberous root.農化學會第三十三次大會論文宣讀，1995。 Chen YT and Lin CT (1995) Cloning and structure analysis of Cu/Zn-SOD gene from sweet potato. 農化學會第三十三次大會論文宣讀，1995。 Chen YT and Lin CT (1995) Over expression of sweet potato cytosolic Cu/Zn-SOD in E. coli. 農化學會第三十三次大會論文宣讀，1995。

學術研討會論文 (*Invited speaker)

Lin TW, Kou YT, Liu CH, Lin WT, Chen YT*: Build up the highest astaxanthin production platform by using optima cultural condition analysis of Chlorella. sp. DT and the tr ansgenic approach. 14^th International Symposium on Agricultural Biocatalysis and Biotechnology
Liu CH, Chen YT, Chen CS, Shaw JF: Lipase cloned from Staphylococcus epidermidis: crystallization and X-ray crystallographic analysis. 13^th International Symposium on Agricultural Biocatalysis and Biotechnology
Liu JH*, Nien CY, Chang CW, Hong CS, Chang SW, Chen YT and Shaw JF: Contribution of surface residues on the thermostability of the trehalose synthase from Picrophilus torridus. 13^th International Symposium on Agricultural Biocatalysis and Biotechnology
Liu CH, Chen PT, Hsu FY, Chen YT, Chen CS, Shaw JF: Thermal stable esterase (rGtEst1) of Geobacillus thermodnitrificans PS01.12^th Cross-Strait International Conference on Symposium on Plant Molecular Biology and Biotechnology
ZengWW, Chen TC, Wang SY, Liu CH, Chen YT*: Identification of an anti-proliferative 2,4-dimethoxy-6-methylbenzene- 1,3-diol from Antrodia cinnamomea. 12^th Cross-Strait International Conference on Symposium on Plant Molecular Biology and Biotechnology
Liu JH, Chuang HH, Chen TW, Shaw JF, and Chen YT*: Catalytic related amino acid of glutaredoxin from Chlorella sorokiniana 12^th Cross-Strait International Conference on Symposium on Plant Molecular Biology and Biotechnology
Zeng WW, Wang SY, Liu CH, Chen YT*: Identification of a dual-function phenolic compound with anti-oxidant and anti-proliferative activities in Antrodia cinnamome. 2016中草藥在抗老化植物新藥之應用趨勢研討會
Chiu CM, Chao HY, Chen YT*: Physiological Function of GDSL-lipase in Rice (Oryza sativa). The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology
Hsu FY, Liu CH, Chen YT, Chen PT, Chen CS, Shaw JF*: Gene analysis and Biochemical Characterization of a Novel Recombinant Lipase rGtLIP1 from Geobacillus thermodenitrificans PS01. The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology
Chao HY, Chen YT*: Rice GDSL Lipase may Promote Grain Yield and Salt Resistance. The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology
Huang YH, Zeng WW, Wang WN, Chen YT*: Improvement of the Antioxidant Activity of Antrodia cinnamomea by Medium Modification and Adding Methanolic Extract of Cinnamomum kanehirae The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology
Kuo YT, Lee JH, Chen YT*: Beta-Carotene Ketolase of Chlorella. sp. DT Cloning and Overexpression for Astaxanthin Production in Transgenic Plant. The 10^th International Symposium on Agricultural Biocatalysis and Biotechnology
Hsu-Han Chuang, Chen YT and Jei-Fu Shaw (2013) (Invited Lecture) Study the gene functions of rice lipases/esterases by using functional proteomics approaches. The 9th International Symposium on Agricultural Biocatalysis and Biotechnology. Piešťany, Slovak Republic, October 13 – 16, 2013.
Lee JH, Chen YT, Chuang HH, Chiu JM (2012) Cloning and characterization cinnamyl alcohol dehydrogenase from Chlorella sorokiniana T89. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22. (Excellent Poster Award)
Zeng WW, Wang WN, Shaw JF*, and Chen YT (2012) Improvement of the antioxidant activity of Antrodia Cinnamomea by medium modification and adding methanolic extract of Cinnamomum kanehirae leaf. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22. (Excellent Poster Award)
Cheng CY, Shaw JF*, Chen YT (2012) Cloning and characterization of glutaredoxin from Chlorella sorokiniana T89. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22. (Excellent Poster Award)
Chen PT, Chiang CJ, Chen YT, Lin HC, Liu CH, Chao YP* and Shaw JF* (2012) Chromosome engineering Escherichia coli host for the efficient production of Picrophilus torridus trehalose synthase. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22. (Best Poster Award)
Chuang HH, Liu CH, Chen YTand Shaw JF (2012) (Invited Lecture) Study rice estersaes/lipases by functional proteomics approach. International Symposium on Oil Food Biotechnology. Kao-Hsiung, Taiwan, Dec 21-22.
Jei-Fu Shaw* and Chen YT (2012) Biocatalysis in Agricultural Biotechnology. BIT’s 3rd Inaugural Symposium on Enzymes & Biocatalysis-2012 (SEB-2012), Xi’an, China. April, 25-28.
Chuang HH, Chen YT and Shaw JF (2011) (Invited lecture) Functional proteomic analysis and characterization of a novel rice bran esterases/lipases. The 7th International Symposium on Agricultural Biocatalysis and Biotechnology. Kyoto, Japan. Oct 10-13.
Bezirganoglu I, Chen YT, Chuang HH, Hwang SY, Shaw JF* (2010) Improve the resistance to Rhizoctonia solani of transgenic melon (Cucumis melo silver light L.) plants with overexpressing chitinases. The 6th International Symposium on Biocatalysis and Biotechnology. Seoul, Korea. Nov 17-19.
Yu TA, Chen YT*, Chiang CH, Wang PT, Chang YL, Shih HD, Yeh SD, Shaw JF* (2010) (Invited lecture) Transgenic melon plants expressing antifungal AFP3 protein develop resistance to fungal diseases. The 6th International Symposium on Biocatalysis and Biotechnology. Seoul, Korea. Nov 17-19.
Chuang HH, Chen YT*, Shaw JF* (2010) (Invited lecture) Characterization and application of the recombinant rice bran lipase. 2010 Lipid Science Division Symposium at the Annual Meeting of Korean Society of Food Science and Technology. Inchon, Korea. Jun 16-18.
Bezirganoglu I, Chen YT, Chang YL, Shaw JF* (2009) Melon transformation using antifungal protein & chitinase gene to against fungal disease Rhizoctania Solani. The 5th International Symposium on Biocatalysis and Biotechnology. Taiwan. Nov 18-20. (Excellent Poster Award)
Chen YT and Shaw JF (2008) (Invited lecture) NCHU/CUHK Bilateral Symposium on Plant Biotechnology. Dec 17-23, Taichung, Taiwan.
Chen YT and Shaw JF (2007) (Invited Speech) Functional genes and biotechenology. The Sixth Cross-Strait Symposium on Plant Molecular Biology and Biotechnology. Jul. 3-7, Hong Kong, China
Chen YT and J.F. Shaw (2007) (Organizer and Invited Speech) Papaya functional genomics and biotechnological application. 3rd Internatrional Symposium on Biocatalysis amd Biotechnology. Nov. 28-30, Taichung, Taiwan
Lee LC, Chen YT, Yen CC, Tang SJ, Lee GC and Shaw JF (2007) Altering the Substrate Specificity of Candida rugosa LIP4 by Engineering the Substrate-Binding Sites. 3rd Internatrional Symposium on Biocatalysis and Biotechnology. Nov. 28-30, Taichung, Taiwan.
Chen YT, and Shaw JF (2007) (Organizer and Invited Speech) Papaya functional genomics and biotechnological application. 3rd Internatrional Symposium on Biocatalysis amd Biotechnology. Nov. 28-30, Taichung, Taiwan
Chen YT and Shaw JF (2007) (Invited Speech) The Application of Functional Genomics Study on Papaya and Its Implication in Fruit Industry. The International Symposium on Bio-industry Development and Post-graduate Workshop, Dec. 4-7, Taichung, Taiwan.
Chou YF, Chen HH, Chen YT, Shaw JF (2006) (Invited oral presentation) Molecular characterization of three broccoli chloropyllase genes, differentially regulated by ethylene. 7th International Symposium on the Plant Hormone Ethylene. June 18-22, Pisa, Italy.
Chen YT, Huang IP, Shu LH, Shaw JF (2006) Cloning and characterization of ethylene-upregualted chitinase from papaya. 7th International Symposium on the Plant Hormone Ethylene. June 18-22, Pisa, Italy.
Chen YT, Chen HH, Uchimiya H, Chu MJ, Chiou YS, Shaw JF, Huang LC (2005) (Invited oral presentation) Prolonging the longevity of Cymbidium flowers through genetic transformation. Proceeding of ISHS on the 3rd International Symposium on Biotechnology of Temperate Fruit Crops and Tropic species. October 10-14, USA.
Chen YT (2005) (Invited speech) Papaya fruit maturation and ripening associated gene. April 19, USDA, Beltsville, USA.
Chen YT, Chou TL, Yang CY, Kao CY, Lai HY, Jian WT, Shaw JF (2004) (Invited oral presentation) Papaya fruit maturation and ripening associated gene. International Symposium on Plant Functional Genomics. WA-06, June 6-11, Verona, Italy.
Chen YT, Chou TL, Yang CY, Kao CY, Lai HY, Jian WT, Shaw JF (2003) Papaya fruit maturation and ripening associated gene. International Symposium on Plant Functional Genomics. A17, Nov 17-19, Taipei, Taiwan.
Chen YT, Lee IR, Yang CY, Shaw JF (2001) Differential expression of the 1-aminocyclopropane-1-carboxylate oxidase gene family of papaya. 第十六屆生物醫學聯合年會生物化學及分子生物學學會壁報論文 P99, Mar, 24-25, Taipei, Taiwan。
Chen YT and Shaw JF (2001) (Invited lecture) Papaya ACC oxidases. The 2nd Internationtional Symposium on Biotechnology of Tropical and Subtropical Species. Nov. 5-9.Taipei, Taiwan.
Chen YT, Lee IR, Yang CY, Shaw JF (2000) Differential expression of the papaya 1-aminocyclopropane-1-carboxylate oxidase gene family. Symposium on Plant Sciences for 21st Century. C10. pp56. Nov. 9-10, Taipei, Taiwan.
Yang CY, Lin Y, Chu FH, Chen YT, Lee YR, Shaw JF (2000) Senescemce associated genes of broccoli florets. Symposium on Plant Sciences for 21st Century. B5. pp34. Nov. 9-10, Taipei, Taiwan.
Chen YT and Lin CT (1995) Purification and characterization of two isozymes of Cu/Zn-SOD from sweet potota tuberous root.農化學會第三十三次大會論文宣讀，1995。
Chen YT and Lin CT (1995) Cloning and structure analysis of Cu/Zn-SOD gene from sweet potato. 農化學會第三十三次大會論文宣讀，1995。
Chen YT and Lin CT (1995) Over expression of sweet potato cytosolic Cu/Zn-SOD in E. coli. 農化學會第三十三次大會論文宣讀，1995。

專書
陳玉婷、陳榮芳、黃麗春、蕭介夫 (2004) 植物基因轉殖在植物保鮮儲運上之應用，教育部植物生物技術教學資源中心主編—植物基因轉殖之原理與應用，2004，p243-254。

專利
Shaw, J.F.,Y.T. Chen, L.H. Hus. Novel chitinase and use thereof. U.S.A patent US7670820, Jan 14, 2008-Jan 17, 2028 (March 2, 2010)

陳玉婷

副教授

研究方向:分子生物，植物基因轉殖，植物功能性基因體，生物能源

劉俊宏

jhliu@nchu.edu.tw (04)22840338 #7181(辦公室) #7131(實驗室) 防疫檢疫大樓7樓 718 室

研究室:結構生物資訊核心實驗室

榮譽

時間	內容
2006/07	“Glycosphingolipid-facilitated membrane insertion and internalization of cobra cardiotoxin: crystal structure of the cardiotoxin/sulfatide complex.” 中央研究院分子生物研究所學生/助理/博士後申請出席國際學術會議獎助
2004/10	“Crystal structure of PriB, a primosomal DNA replication protein of Escherichia coli.” 國家同步輻射研究中心第十屆用戶年會暨研討會學生口頭報告比賽第二名與壁報比賽佳作
2004/05	“Crystal structure of PriB, a primosomal DNA replication protein of Escherichia coli.” 第九屆生物物理新知研討會青年學子壁報論文獎第二名

簡要經歷

職稱	服務單位	起訖年月
副教授	中興大學基因體暨生物資訊所	2020/08 – 迄今
合聘助理教授	中興大學生物技術學研究所	2008/08 – 迄今
專任助理教授	中興大學基因體暨生物資訊所	2009/02 – 2020/07
助理教授	台灣生物物理學會	2007/05 –
兼任助理教授	國立中興大學生物技術學研究所	2007/02 –
合聘助理教授	國立中興大學生命科學系	2007/02 -迄今
專任助理教授	國立中興大學生物科技發展中心	2008/08 -迄今
博士後研究員	中央研究院分子生物研究所	2006/01 – 2007/01
博士	國防醫學院、中央研究院、國家衛生研究院合辦生命科學研究所	2001/08 – 2005/12
碩士	國立陽明大學遺傳學研究所	1995/09 – 1997/06
學士	台北醫學院藥學系	1991/09 – 1995/06

專業訓練

內容
美國結晶學會暑期訓練課程「Summer course in crystallography」蛋白質結構與功能(Structure and function of proteins) 美國喬治亞大學 (2001/06)

學術演講

內容
“Glycosphingolipid-facilitated membrane insertion and internalization of cobra cardiotoxin: crystal structure of the cardiotoxin/sulfatide complex.”美國結晶學會 2006 年年會「環太平洋地區X光與中子設施的科學研究」議程 (2006/07)

教學與研究

開設課程 [教材下載]
[大學部] 生物化學 [大學部] 生物技術 [研究所] 研究所 [研究所] 專題討論 [研究所] 生物化學特論 [研究所] 應用基因體學及生物資訊學暨實習 [研究所] 蛋白質工程學 [研究所] 蛋白質分子模擬及理論藥物設計 [生技博士班] 生物化學特論 [生技博士班] 技術特論 [通識教育講座] 生命科學與人生 [暑期核心課程學分班] 生物資訊學在生命科學上之應用暨實習 [暑期核心課程學分班] 功能蛋白質體學暨實習 [暑期核心課程學分班] 基因體學

開設課程 [教材下載]

[大學部] 生物化學
[大學部] 生物技術
[研究所] 研究所
[研究所] 專題討論
[研究所] 生物化學特論
[研究所] 應用基因體學及生物資訊學暨實習
[研究所] 蛋白質工程學
[研究所] 蛋白質分子模擬及理論藥物設計
[生技博士班] 生物化學特論
[生技博士班] 技術特論
[通識教育講座] 生命科學與人生
[暑期核心課程學分班] 生物資訊學在生命科學上之應用暨實習
[暑期核心課程學分班] 功能蛋白質體學暨實習
[暑期核心課程學分班] 基因體學

研究專長
蛋白質結構解析結構生物資訊學生物分子X光晶譜學

研究主題

實驗室研究方向 [詳細內容]
研究主題: 工業酵素的蛋白質結構改良細菌抗藥性酵素的結構解析與新藥開發、真核細胞內核糖體/訊號辨識粒子/蛋白質轉位體間的交互作用、酵母菌染色質重塑複合體 RSC、果蠅 JAK/STAT 訊息傳遞途徑、鏈黴菌染色體末端蛋白本實驗室目前研究以下蛋白質的結構，並探討其在生物體內的功能： I. 真核細胞內核糖體/訊號辨識粒子/蛋白質轉位體間的交互作用真核生物核糖體 (Ribosome) 蛋白 L23a 與 L35 (在原核生物內的同源蛋白為 L23 與 L29 ) 在聯繫蛋白質合成、摺疊 (Folding) 與後續運送 (Sorting) 上扮演重大的角色。因為 L23a 與 L35 剛好位在核糖體與監護蛋白 (Chaperones)、訊號辨識粒子 (Signal recognition particle, SRP) 以及蛋白質轉位體 (Translocon) Sec61 相接觸的關鍵地域。雖然近幾年來陸續解出原核核糖蛋白 L23 與 L29 的晶體結構，由於真核核糖蛋白 L23a 與 L35 不論在尺寸與序列上皆和 L23 與 L29 差異極大，十分值得深入探討 L23a 與 L35 如何協助核糖體在真核細胞內同時調控較原核細胞更為複雜的蛋白質合成、摺疊與後續運送。 II. 酵母菌染色質重塑複合體 RSC 在真核細胞內，基因組 (Genome) 通常被保護而包裹成染色質 (Chromatin)，以防止外來的傷害。但是，當細胞要進行去氧核糖核酸 (DNA) 的轉錄 (Transcription)、複製 (Replication)、傷害修補 (Damage repair) 與重組 (Recombination) 時，染色質會感受到細胞的訊息而改變其構造。染色質重塑複合體 (Chromatin remodeling complexes) 會利用消耗三磷酸腺苷 (ATP) 來改變核仁小體 (Nucleosomes) 的結構與分佈情形，進而重塑染色質的構造。在酵母菌 (Saccharomyces cerevisiae) 細胞內有兩組染色質重塑複合體，分別是 SWI/SNF (SWItch / Sucrose NonFermentable) 與 RSC (Remodelers of the Structure of Chromatin) 複合體。然而兩者中，只有 RSC 複合體對於酵母菌的生存與細胞週期進行是重要且必需的。RSC 複合體內至少含有 16 個蛋白質，其中部分蛋白質成員也同時參與 SWI/SNF 複合體的組成。 III. 果蠅 JAK/STAT 訊息傳遞途徑由 Janus activated kinases (JAKs) 與 Signal transducers and activators of transcription (STATs) 組成的 JAK/STAT 訊息傳遞途徑引導人體內許多重要的生理程序，包含：免疫反應、血球生成、發炎現象以及神經與胚胎的發育。JAK/STAT 訊息傳遞途徑的持續活化也與人類的多種腫瘤的發生，尤其是造血系統惡性腫瘤有關。相較於人，果蠅 (Drosophila melanogaster) 體內有一套簡單的JAK/STAT 訊息傳遞途徑。目前已知其中主要成員包括：三個配體 (Unpaired：Upd、Upd2 與 Upd3)、一個細胞膜上的受器 (Domeless, Dome)、一個 JAK (Hopscotch, Hop) 與一個 STAT (STAT92E)。雖然成員簡單，卻參與了果蠅的體節生成、性別決定、免疫反應、血球生成、眼睛細胞的增生及分化、以及中樞神經、後腸與氣管的發育。 IV. 鏈黴菌染色體末端蛋白鏈黴菌 (Streptomyces) 是一種普遍存在於土壤內的絲狀細菌，屬於革蘭氏陽性菌。鏈黴菌可製造出許多有價值的醫藥品，其中以種類繁多的抗生素最為人所悉。不同於一般細菌具有環形的染色體，鏈黴菌的染色體與質體的構造為直線形。鏈黴菌染色體與質體的端粒 (Telomeres) 均帶有末端蛋白 (Terminal proteins)，它們以共價鍵結合上去氧核糖核酸 (DNA) 的 5′ 端。除了保護染色體與質體的端粒構造，目前認為當鏈黴菌染色體利用本身的複製起始點 (The chromosomal origin of replication, OriC) 進行雙向複製後，末端蛋白還擔當引子 (Primer) 來補齊延遲股 (The lagging strand) 上的端點複製問題 (The end replication problem)。

實驗室研究方向 [詳細內容]

研究主題:

工業酵素的蛋白質結構改良細菌抗藥性酵素的結構解析與新藥開發、真核細胞內核糖體/訊號辨識粒子/蛋白質轉位體間的交互作用、酵母菌染色質重塑複合體 RSC、果蠅 JAK/STAT 訊息傳遞途徑、鏈黴菌染色體末端蛋白

本實驗室目前研究以下蛋白質的結構，並探討其在生物體內的功能：

I. 真核細胞內核糖體/訊號辨識粒子/蛋白質轉位體間的交互作用

真核生物核糖體 (Ribosome) 蛋白 L23a 與 L35 (在原核生物內的同源蛋白為 L23 與 L29 ) 在聯繫蛋白質合成、摺疊 (Folding) 與後續運送 (Sorting) 上扮演重大的角色。因為 L23a 與 L35 剛好位在核糖體與監護蛋白 (Chaperones)、訊號辨識粒子 (Signal recognition particle, SRP) 以及蛋白質轉位體 (Translocon) Sec61 相接觸的關鍵地域。雖然近幾年來陸續解出原核核糖蛋白 L23 與 L29 的晶體結構，由於真核核糖蛋白 L23a 與 L35 不論在尺寸與序列上皆和 L23 與 L29 差異極大，十分值得深入探討 L23a 與 L35 如何協助核糖體在真核細胞內同時調控較原核細胞更為複雜的蛋白質合成、摺疊與後續運送。

II. 酵母菌染色質重塑複合體 RSC

在真核細胞內，基因組 (Genome) 通常被保護而包裹成染色質 (Chromatin)，以防止外來的傷害。但是，當細胞要進行去氧核糖核酸 (DNA) 的轉錄 (Transcription)、複製 (Replication)、傷害修補 (Damage repair) 與重組 (Recombination) 時，染色質會感受到細胞的訊息而改變其構造。染色質重塑複合體 (Chromatin remodeling complexes) 會利用消耗三磷酸腺苷 (ATP) 來改變核仁小體 (Nucleosomes) 的結構與分佈情形，進而重塑染色質的構造。在酵母菌 (Saccharomyces cerevisiae) 細胞內有兩組染色質重塑複合體，分別是 SWI/SNF (SWItch / Sucrose NonFermentable) 與 RSC (Remodelers of the Structure of Chromatin) 複合體。然而兩者中，只有 RSC 複合體對於酵母菌的生存與細胞週期進行是重要且必需的。RSC 複合體內至少含有 16 個蛋白質，其中部分蛋白質成員也同時參與 SWI/SNF 複合體的組成。

III. 果蠅 JAK/STAT 訊息傳遞途徑

由 Janus activated kinases (JAKs) 與 Signal transducers and activators of transcription (STATs) 組成的 JAK/STAT 訊息傳遞途徑引導人體內許多重要的生理程序，包含：免疫反應、血球生成、發炎現象以及神經與胚胎的發育。JAK/STAT 訊息傳遞途徑的持續活化也與人類的多種腫瘤的發生，尤其是造血系統惡性腫瘤有關。相較於人，果蠅 (Drosophila melanogaster) 體內有一套簡單的JAK/STAT 訊息傳遞途徑。目前已知其中主要成員包括：三個配體 (Unpaired：Upd、Upd2 與 Upd3)、一個細胞膜上的受器 (Domeless, Dome)、一個 JAK (Hopscotch, Hop) 與一個 STAT (STAT92E)。雖然成員簡單，卻參與了果蠅的體節生成、性別決定、免疫反應、血球生成、眼睛細胞的增生及分化、以及中樞神經、後腸與氣管的發育。

IV. 鏈黴菌染色體末端蛋白

鏈黴菌 (Streptomyces) 是一種普遍存在於土壤內的絲狀細菌，屬於革蘭氏陽性菌。鏈黴菌可製造出許多有價值的醫藥品，其中以種類繁多的抗生素最為人所悉。不同於一般細菌具有環形的染色體，鏈黴菌的染色體與質體的構造為直線形。鏈黴菌染色體與質體的端粒 (Telomeres) 均帶有末端蛋白 (Terminal proteins)，它們以共價鍵結合上去氧核糖核酸 (DNA) 的 5′ 端。除了保護染色體與質體的端粒構造，目前認為當鏈黴菌染色體利用本身的複製起始點 (The chromosomal origin of replication, OriC) 進行雙向複製後，末端蛋白還擔當引子 (Primer) 來補齊延遲股 (The lagging strand) 上的端點複製問題 (The end replication problem)。

著作

期刊論文 (*Corresponding author)
Fang, Y.-T., Lai, W.-S., Liu, J.-H., Liu, Y.-C.: Enhanced cecropin B2 production via chitin-binding domain and intein self-cleavage system. Biotechnology And Applied Biochemistry(2018) Shen, W.-F., Galula, J.U., Liu, J.-H., Liao, M.-Y., Huang, C.-H., Wang, Y.-C., Wu, H.-C., Liang, J.-J., Lin, Y.-L., Whitney, M.-T., Chang, G.-J., Chen, S.-R., Wu, S.-R., Chao, D.-Y.: Epitope resurfacing on dengue virus-like particle vaccine preparation to induce broad neutralizing antibody. Elife(2018) Chiu, H.-C., Huang, W.-R., Liao, T.-L., Chi, P.-I., Nielsen, B.L., Liu, J.-H., Liu, H.-J.: Mechanistic insights into avian reovirus p17-modulated suppression of cell cycle CDK-cyclin complexes and enhancement of p53 and cyclin H interaction. Journal Of Biological Chemistry(2018) Lee, C.-Y., Lin, C.-C., Liu, Y.-L., Liu, G.-Y., Liu, J.-H., Hung, H.-C.: Molecular interplay between the dimer interface and the substrate-binding site of human peptidylarginine deiminase 4. Scientific Report(2017) Li, C., Bai, X., Meng, R., Shaozhou, W., Zhang, Q., Hua, R., Liu, J.-H., Liu, M., Zhang, Y.: Identification of a new broadly cross-reactive epitope within domain III of the duck Tembusu virus E protein. Scientific Reports(2016) Li, C., Liu, J., Shaozhou, W., Bai, X., Zhang, Q., Hua, R., Liu, J.-H., Liu, M., Zhang, Y.: Epitope identification and application for diagnosis of duck Tembusu virus infections in ducks. VIRUSES-BASEL(2016) Kuo, T.-C., Li, L.-W., Pan, S.-H., Fang, J.-M., Liu, J.-H., Cheng, T.-J., Wang, C.-J., Hung, P.-F., Chen, H.-Y., Hong, T.-M., Hsu, Y.-L., Wong, C.-H., Yang, P.-C.: Purine-type compounds induce microtubule fragmentation and lung cancer cell death through interaction with katanin. Journal of Medicinal Chemistry(2016) Chen, J.-C., Liu, J.-H., Hsu, D.-W., Shu, J.-C., Chen C.-Y., Chen, C.-C.: Methylatable signaling helix coordinated inhibitory receiver domain in sensor kinase modulates environmental stress response in Bacillus cereus. PLoS One(2015) Hsieh, J.-Y., Li, S.-Y., Tsai, W.-C., Liu, J.-H., Lin, C.-L., Liu, G.-Y., Hung, H.-C.: A small-molecule inhibitor suppresses the tumor-associated mitochondrial NAD(P)+-dependent malic enzyme (ME2) and induces cellular senescence. Oncotarget(2015) Lin, H.-Y., Liu, J.-H., Cheng, K.-L., Lin, J.-Y., Liu, N.-R., Meng, M.-H.: A novel binding of GTP stabilizes the structure and modulates the activities of human phosphoglucose isomerase/autocrine motility factor. Biochemistry and Biophysics Reports(2015) Hsieh, J.-Y., Li, S.-Y., Chen, M.-C., Yang, P.-C., Chen, H.-Y., Chan, N.-L., Liu, J.-H., Hung, H.-C.: Structural characteristics of the nonallosteric human cytosolic malic enzyme. BIOCHIMICA ET BIOPHYSICA ACTAPROTEINS AND PROTEOMICS(2014) Hsieh, J.-Y., Liu, J.-H., Yang, P.-C., Lin, C.-L., Liu, G.-Y., Hung, H.-C. (2014, Jun). :Fumarate analogs act as allosteric inhibitors of the human mitochondrial NAD(P)+-dependent malic enzyme.PLoS One 1. Chepyshko, H., Lai, C.-P., Huang, L.-M., Liu, J.-H., and Shaw, J.-F. (2012, Jul.) Multifunctionality and diversity of GDSL esterase/lipase gene family in rice (Oryza sativa L. japonica) genome: new insights from bioinformatics analysis. BMC Genomics 13, 309 doi:10.1186/1471-2164-13-309 (SCI, IF2011=4.073 Times cited :8) Hsieh, J.-Y., Liu, J.-H., Fang, Y.-W., Hung, H.-C. (2009, May.) Dual roles of Lys57 at the dimer interface of human mitochondrial NAD(P)+-dependent malic enzyme. Biochem. J. 402, 201-9. (SCI, IF2007=4.009 Times cited :0) Li, T.-N., Chin, K.-H., Liu, J.-H., Wang, A H.-J., Chou, S.-H. (2009, May.) XC1028 from Xanthomonas campestris adopts a PilZ domain-like structure without a c-di-GMP switch. Proteins. 75, 282-8. (SCI, IF2007=3.354 Times cited :0) Chou, C.-C., Chang, C.-W., Liu, J.-H., Chen, L.-F., Hsiao, C.-D., Chen, H.-W. (2007, Sep.) Small Ubiquitin-like Modifier Modification Regulates the DNA Binding Activity of Glial Cell Missing Drosophila Homolog a. J. Biol. Chem. 282, 27239-49. (SCI, IF2006=5.808 Times cited :3) Wang, C.-H., Liu, J.-H., Lee, S.-C., Wu, W.-g., and Hsiao, C.-D. (2006, Jan.) Glycosphingolipid-facilitated membrane insertion and internalization of cobra cardiotoxin: the sulfatide/cardiotoxin complex structure in a membrane-like environment suggests a lipid-dependent cell-penetrating mechanism for membrane binding polypeptides. J. Biol. Chem. 281, 656-77.(SCI, IF 2006=5.808; Times cited: 15) These authors contributed equally to this work. Liu, J.-H., Chang, T.-W., Huang, C.-Y., Chen, S.-U., Wu, H.-N., Chang, M.-C., Hsiao, C.-D. (2004, Nov.) Crystal structure of PriB, a primosomal DNA replication protein of Escherichia coli. J. Biol. Chem. 279, 50465-71. (SCI, IF2006=5.808 Times cited : 5) Forouhar, F., Huang, W.-N., Liu, J.-H., Chien, K.-Y., Wu, W.-g. and Hsiao, C.-D. (2003, Jun.) Structural basis of the membrane-induced cardiotoxin A3 oligomerization. J. Biol. Chem. 278, 21980-8. (SCI, IF2006=5.808 Times cited :21)[PDB] Liu, J. H., Liao, Y. D., Sun Y. J. (2001, Nov.) Crystallization and preliminary X-ray diffraction analysis of cytotoxic ribonucleases from bullfrog Rana catesbeiana. Acta Crystallogr. D57, 1697-9. (SCI, IF*2006=1.687 Times cited :0)

期刊論文 (*Corresponding author)

Fang, Y.-T., Lai, W.-S., Liu, J.-H.*, Liu, Y.-C.*: Enhanced cecropin B2 production via chitin-binding domain and intein self-cleavage system. Biotechnology And Applied Biochemistry(2018)
Shen, W.-F., Galula, J.U., Liu, J.-H., Liao, M.-Y., Huang, C.-H., Wang, Y.-C., Wu, H.-C., Liang, J.-J., Lin, Y.-L., Whitney, M.-T., Chang, G.-J., Chen, S.-R., Wu, S.-R., Chao, D.-Y.: Epitope resurfacing on dengue virus-like particle vaccine preparation to induce broad neutralizing antibody. Elife(2018)
Chiu, H.-C., Huang, W.-R., Liao, T.-L., Chi, P.-I., Nielsen, B.L., Liu, J.-H., Liu, H.-J.: Mechanistic insights into avian reovirus p17-modulated suppression of cell cycle CDK-cyclin complexes and enhancement of p53 and cyclin H interaction. Journal Of Biological Chemistry(2018)
Lee, C.-Y., Lin, C.-C., Liu, Y.-L., Liu, G.-Y.*, Liu, J.-H.*, Hung, H.-C.*: Molecular interplay between the dimer interface and the substrate-binding site of human peptidylarginine deiminase 4. Scientific Report(2017)
Li, C., Bai, X., Meng, R., Shaozhou, W., Zhang, Q., Hua, R., Liu, J.-H., Liu, M., Zhang, Y.*: Identification of a new broadly cross-reactive epitope within domain III of the duck Tembusu virus E protein. Scientific Reports(2016)
Li, C., Liu, J., Shaozhou, W., Bai, X., Zhang, Q., Hua, R., Liu, J.-H.*, Liu, M.*, Zhang, Y.*: Epitope identification and application for diagnosis of duck Tembusu virus infections in ducks. VIRUSES-BASEL(2016)
Kuo, T.-C., Li, L.-W., Pan, S.-H.*, Fang, J.-M.*, Liu, J.-H., Cheng, T.-J., Wang, C.-J., Hung, P.-F., Chen, H.-Y., Hong, T.-M., Hsu, Y.-L., Wong, C.-H., Yang, P.-C.: Purine-type compounds induce microtubule fragmentation and lung cancer cell death through interaction with katanin. Journal of Medicinal Chemistry(2016)
Chen, J.-C., Liu, J.-H., Hsu, D.-W., Shu, J.-C., Chen C.-Y., Chen, C.-C.*: Methylatable signaling helix coordinated inhibitory receiver domain in sensor kinase modulates environmental stress response in Bacillus cereus. PLoS One(2015)
Hsieh, J.-Y., Li, S.-Y., Tsai, W.-C., Liu, J.-H., Lin, C.-L., Liu, G.-Y.*, Hung, H.-C.*: A small-molecule inhibitor suppresses the tumor-associated mitochondrial NAD(P)+-dependent malic enzyme (ME2) and induces cellular senescence. Oncotarget(2015)
Lin, H.-Y., Liu, J.-H., Cheng, K.-L., Lin, J.-Y., Liu, N.-R., Meng, M.-H.*: A novel binding of GTP stabilizes the structure and modulates the activities of human phosphoglucose isomerase/autocrine motility factor. Biochemistry and Biophysics Reports(2015)
Hsieh, J.-Y., Li, S.-Y., Chen, M.-C., Yang, P.-C., Chen, H.-Y., Chan, N.-L.*, Liu, J.-H.*, Hung, H.-C.*: Structural characteristics of the nonallosteric human cytosolic malic enzyme. BIOCHIMICA ET BIOPHYSICA ACTAPROTEINS AND PROTEOMICS(2014)
Hsieh, J.-Y., Liu, J.-H., Yang, P.-C., Lin, C.-L., Liu, G.-Y.*, Hung, H.-C.* (2014, Jun). :Fumarate analogs act as allosteric inhibitors of the human mitochondrial NAD(P)+-dependent malic enzyme.PLoS One
1. Chepyshko, H., Lai, C.-P., Huang, L.-M., Liu, J.-H., and Shaw, J.-F. (2012, Jul.) Multifunctionality and diversity of GDSL esterase/lipase gene family in rice (Oryza sativa L. japonica) genome: new insights from bioinformatics analysis. BMC Genomics 13, 309 doi:10.1186/1471-2164-13-309 (SCI, IF2011=4.073 Times cited :8)
Hsieh, J.-Y., Liu, J.-H., Fang, Y.-W., Hung, H.-C. (2009, May.) Dual roles of Lys57 at the dimer interface of human mitochondrial NAD(P)+-dependent malic enzyme. Biochem. J. 402, 201-9. (SCI, IF2007=4.009 Times cited :0)
Li, T.-N., Chin, K.-H., Liu, J.-H., Wang, A H.-J., Chou, S.-H. (2009, May.) XC1028 from Xanthomonas campestris adopts a PilZ domain-like structure without a c-di-GMP switch. Proteins. 75, 282-8. (SCI, IF2007=3.354 Times cited :0)
Chou, C.-C., Chang, C.-W., Liu, J.-H., Chen, L.-F., Hsiao, C.-D., Chen, H.-W. (2007, Sep.) Small Ubiquitin-like Modifier Modification Regulates the DNA Binding Activity of Glial Cell Missing Drosophila Homolog a. J. Biol. Chem. 282, 27239-49. (SCI, IF2006=5.808 Times cited :3)
Wang, C.-H.*, Liu, J.-H.*, Lee, S.-C., Wu, W.-g., and Hsiao, C.-D. (2006, Jan.) Glycosphingolipid-facilitated membrane insertion and internalization of cobra cardiotoxin: the sulfatide/cardiotoxin complex structure in a membrane-like environment suggests a lipid-dependent cell-penetrating mechanism for membrane binding polypeptides. J. Biol. Chem. 281, 656-77.(SCI, IF 2006=5.808; Times cited: 15) *These authors contributed equally to this work.
Liu, J.-H., Chang, T.-W., Huang, C.-Y., Chen, S.-U., Wu, H.-N., Chang, M.-C., Hsiao, C.-D. (2004, Nov.) Crystal structure of PriB, a primosomal DNA replication protein of Escherichia coli. J. Biol. Chem. 279, 50465-71. (SCI, IF2006=5.808 Times cited : 5)
Forouhar, F., Huang, W.-N., Liu, J.-H., Chien, K.-Y., Wu, W.-g. and Hsiao, C.-D. (2003, Jun.) Structural basis of the membrane-induced cardiotoxin A3 oligomerization. J. Biol. Chem. 278, 21980-8. (SCI, IF2006=5.808 Times cited :21)[PDB]
Liu, J. H., Liao, Y. D., Sun Y. J. (2001, Nov.) Crystallization and preliminary X-ray diffraction analysis of cytotoxic ribonucleases from bullfrog Rana catesbeiana. Acta Crystallogr. D57, 1697-9. (SCI, IF2006=1.687 Times cited :0)

研討會論文 (*Invited speaker)
Liu, J.-H., Lee, Y.-P., Yang, J.-Y.: The Crystal Structure of the N-terminally Deleted Type III Effector protein XopAI. The 23th Biophysics Conference. Liu, J.-H., Lee, C.-Y., Lin, C.-C., Liu, Y.-L., Liu, G.-Y., Hung, H.-C.: Molecular Dynamics Study on the Interaction between Dimer Interface and Substrate-Binding Site of Human Peptidylarginine Deiminase 4. The 22th Biophysics Conference. Liu, J.-H.: Replica exchange molecular dynamics method for Trp-cage folding simulation in implicit solvent. The 20th Biophysics Conference. Peng, L.-W., Chen, Y.-T., and Liu, J.-H.: Crystallization of Dps protein from Klebsiella oxytoca The 20th NSRRC Users’ Meeting. Lin, C.-W., Hung, H.-C., and Liu, J.-H.: Crystallization of human cytosolic NADP+-dependent malic enzyme complexed with cofactor and substrates. The 20th NSRRC Users’ Meeting. Chen, C.-W., Shen, G.-H., Chen, J.-H., and Liu, J.-H.(2013, Nov) Virtual screening and experimental verification to identify potential inhibitors of the Erm(41) methyltransferase responsible for bacterial resistance against macrolide antibiotics. 台灣生物化學及分子生物學學會2013年冬令營. (Poster) Peng, L.-W., Chen, Y.-T. and Liu, J.-H.. (2013, Sep) Crystallization of β-lactamase like protein from Klebsiella oxytoca E718. The 19th NSRRC Users’ Meeting. (Poster) Liu, J.-H., Chen, C. K.-M., Chang, S.-W., Shaw, J.-F., Wang, A. H.-J., and Liu, J.-H. (2012, Oct.) Preliminary X-ray crystallographic analysis of trehalose synthase from Deinococcus radiodurans. The 18th NSRRC Users’ Meeting. (Poster) Chen, J.-W., Nien, C.-Y., Chen, C. K.-M., Chang, S.-W., Shaw, J.-F., Wang, A. H.-J., and Liu, J.-H.(2012, Oct.) Preliminary X-ray crystallographic analysis of trehalose synthase from Picrophilus torridus. The 18th NSRRC Users’ Meeting. (Poster) Nien, C.-Y., Cheng, C.-Y., Liu, J.-H., Shaw, J.-F., and Chen, Y.-T. (2012, May.) Crystal structure of glutaredoxin from Chlorella sorokiniana T-89. The 17th Biophysics Conference. (Poster) Hung, S.-J. and Liu, J.-H. (2012, May.) Design of an accurate predictor for the thermostable protein design in PERT server. The 17th Biophysics Conference. (Poster) Wu, J.-E., Chiu, S.-W., Yang, J.-Y., and Liu, J.-H. (2012, Mar.) Crystal structure of XopAI from Xanthomonas axonopodis pv. citri. 2012 International Conference on c-di-GMP and Xanthomonads. (Poster) Hung, S.-J. andLiu, J.-H. (2011, Dec.) PERT: an integrated informatics platform for thermostable protein design. 2011 Taiwan Enzyme Mechanism Conference. (Poster) Nien, C.-Y., Cheng, C.-Y., Shaw, J.-F., Chen, Y.-T., and Liu, J.-H. (2011, Oct.) Crystallization and preliminary X-ray crystallographic analysis of Chlorella glutaredoxin. The 17th NSRRC Users’ Meeting. (Poster) Wu, J.-E., Chiu, S.-W., Yang, J.-Y., and Liu, J.-H. (2010, Oct.) Crystallization and preliminary X-ray crystallographic analysis of XopAI from Xanthomonas axonopodis pv. citri. The 16th NSRRC Users’ Meeting. (Poster) Liu, J.-H., Hong, C.-S., Chang, S.-W., and Shaw, J.-F. (2009, Nov.) Investigation of the structural basis for thermostability of trehalose synthase from Picrophilus torridus. The 5th International Symposium on Biocatalysis and Biotechnology. (Poster) Hsu, Y.-J. and Liu, J.-H. (2009, Oct.) Effects of trimethylamine-N-oxide (TMAO) on the interactions of lysozyme in crystal. The 15th NSRRC Users’ Meeting. (Poster)

研討會論文 (*Invited speaker)

Liu, J.-H., Lee, Y.-P., Yang, J.-Y.: The Crystal Structure of the N-terminally Deleted Type III Effector protein XopAI. The 23th Biophysics Conference.
Liu, J.-H., Lee, C.-Y., Lin, C.-C., Liu, Y.-L., Liu, G.-Y., Hung, H.-C.: Molecular Dynamics Study on the Interaction between Dimer Interface and Substrate-Binding Site of Human Peptidylarginine Deiminase 4. The 22th Biophysics Conference.
Liu, J.-H.: Replica exchange molecular dynamics method for Trp-cage folding simulation in implicit solvent. The 20th Biophysics Conference.
Peng, L.-W., Chen, Y.-T., and Liu, J.-H.: Crystallization of Dps protein from Klebsiella oxytoca The 20th NSRRC Users’ Meeting.
Lin, C.-W., Hung, H.-C., and Liu, J.-H.: Crystallization of human cytosolic NADP+-dependent malic enzyme complexed with cofactor and substrates. The 20th NSRRC Users’ Meeting.
Chen, C.-W., Shen, G.-H., Chen, J.-H., and Liu, J.-H.(2013, Nov) Virtual screening and experimental verification to identify potential inhibitors of the Erm(41) methyltransferase responsible for bacterial resistance against macrolide antibiotics. 台灣生物化學及分子生物學學會2013年冬令營. (Poster)
Peng, L.-W., Chen, Y.-T. and Liu, J.-H.. (2013, Sep) Crystallization of β-lactamase like protein from Klebsiella oxytoca E718. The 19th NSRRC Users’ Meeting. (Poster)
Liu, J.-H., Chen, C. K.-M., Chang, S.-W., Shaw, J.-F., Wang, A. H.-J., and Liu, J.-H. (2012, Oct.) Preliminary X-ray crystallographic analysis of trehalose synthase from Deinococcus radiodurans. The 18th NSRRC Users’ Meeting. (Poster)
Chen, J.-W., Nien, C.-Y., Chen, C. K.-M., Chang, S.-W., Shaw, J.-F., Wang, A. H.-J., and Liu, J.-H.(2012, Oct.) Preliminary X-ray crystallographic analysis of trehalose synthase from Picrophilus torridus. The 18th NSRRC Users’ Meeting. (Poster)
Nien, C.-Y., Cheng, C.-Y., Liu, J.-H., Shaw, J.-F., and Chen, Y.-T. (2012, May.) Crystal structure of glutaredoxin from Chlorella sorokiniana T-89. The 17th Biophysics Conference. (Poster)
Hung, S.-J. and Liu, J.-H. (2012, May.) Design of an accurate predictor for the thermostable protein design in PERT server. The 17th Biophysics Conference. (Poster)
Wu, J.-E., Chiu, S.-W., Yang, J.-Y., and Liu, J.-H. (2012, Mar.) Crystal structure of XopAI from Xanthomonas axonopodis pv. citri. 2012 International Conference on c-di-GMP and Xanthomonads. (Poster)
Hung, S.-J. andLiu, J.-H. (2011, Dec.) PERT: an integrated informatics platform for thermostable protein design. 2011 Taiwan Enzyme Mechanism Conference. (Poster)
Nien, C.-Y., Cheng, C.-Y., Shaw, J.-F., Chen, Y.-T., and Liu, J.-H. (2011, Oct.) Crystallization and preliminary X-ray crystallographic analysis of Chlorella glutaredoxin. The 17th NSRRC Users’ Meeting. (Poster)
Wu, J.-E., Chiu, S.-W., Yang, J.-Y., and Liu, J.-H. (2010, Oct.) Crystallization and preliminary X-ray crystallographic analysis of XopAI from Xanthomonas axonopodis pv. citri. The 16th NSRRC Users’ Meeting. (Poster)
Liu, J.-H., Hong, C.-S., Chang, S.-W., and Shaw, J.-F. (2009, Nov.) Investigation of the structural basis for thermostability of trehalose synthase from Picrophilus torridus. The 5th International Symposium on Biocatalysis and Biotechnology. (Poster)
Hsu, Y.-J. and Liu, J.-H. (2009, Oct.) Effects of trimethylamine-N-oxide (TMAO) on the interactions of lysozyme in crystal. The 15th NSRRC Users’ Meeting. (Poster)

劉俊宏

副教授

研究方向:結構生物資訊，生物分子X光晶譜學

謝立青

liching@dragon.nchu.edu.tw (04)22840338 #7091(辦公室) #7081(實驗室) 動植物防檢疫大樓7樓709室

簡要經歷

職稱	服務單位	起訖年月
副教授	中興大學基因體暨生物資訊所	2020/08 – 迄今
助理教授	國立中興大學基因體暨生物資訊所	2011.2-2020.07
訪問學者	美國芝加哥大學生態演化系	2004.12-2005.11
博士後研究員	中央研究院基因體中心/資訊科學研究所	2004.8-2011.1
博士	國立中央大學物理學

教授課程:

課程名稱
應用基因體學及生物資訊學暨實習(基資所)、使用 R 語言介紹生物統計(基資所)、生物資料分析特論(基資所)、普通物理學(物理系)、普通物理學實驗(物理系)

研究主題

實驗室研究方向
微核醣核酸上游調控網路的演化p53/miR-34 網路之演化上的保守性A 型流行性感冒病毒血凝素的演化

著作

期刊論文(∗Corresponding author)
-W. Chen, R. Satange, P.-C. Wu, C.-R. Jhan, C.-K. Chang, K.-R. Chung, M. J. Waring, S.-W. Lin, L.-C. Hsieh* and M.-H. Hou* (2018) Co^II(Chromomycin)₂ complex induces a conformational change of CCG repeats from i-motif to base-extruded DNA duplex. Int. J. Mol. Sci. 19 (9), 2796 (co-corresponding author) (SCI)* [IF=3.687; CHEMISTRY MULTIDISCIPLINARY, 52/171] -Y. Lin, Y.-Y. Lin, S.-F. Chiang, C. Syu, L.-C. Hsieh* and T.-J. Chiou* (2018) Evolution of microRNA827 targeting in the plant kingdom. New Phytologist. 217 (4): 1712-1725 (co-corresponding author) (SCI)* [IF=7.433; PLANT SCIENCES, 7/223] -Y. Huang, C.-K. Chang, Y.-F. Kao, C.-H. Chin, C.-W. Ni, H.-Y. Hsu, N.-J. Hu, L.-C. Hsieh, S.-H. Chou, I.-R. Lee, and M.-H. Hou (2017) Parity-dependent hairpin configurations of repetitive DNA sequence promote slippage associated with DNA expansion. Proc. Natl. Acad. Sci. U.S.A. 114 (36): 9535-9540 (SCI) [IF=9.504; MULTIDISCIPLINARY SCIENCES, 5/64] M. Tan, C.-H. Li, N.-W. Tsao, L.-W. Su, Y.-T. Lu, S. H. Chang, Y. Y. Lin, J.-C. Liou, L.-C. Hsieh, J.-Z. Yu, C.-R. Sheue, S.-Y. Wang, C.-F. Lee and J.-Y. Yang (2016) Phytoplasma SAP11 alters 3-isobutyl-2-methoxypyrazine biosynthesis in Nicotiana benthamiana by suppressing NbOMT1. J Exp. Bot. 67 (14): 4415-4425 (SCI) [IF=5.354; PLANT SCIENCES, 14/223] L-C. Hsieh, C.-Y. Tseng, L. Luo, F. Ji and H.-C. Lee (2015) Evolutionary Tree Based on Oligonucleotide Frequencies and Conserved Words in 16S and 18S Ribosomal RNA. Biomedical Science Today 2:e11-1-13. L-C. Hsieh, C.-Y. Tseng, L. Luo, F. Ji and H.-C. Lee (2015) Oligo-distance: A Sequence Distance Determined by Word Frequencies. Biomedical Science Today 1:e5-1-8. B. Schaefke, J.J. Emerson, T.-Y. Wang, M.-Y. Lu, L.-C. Hsieh, W.-H. Li. (2013) Inheritance of gene expression level and selective constraints on trans- and cis-regulatory changes in yeast. Mol. Biol. Evol.30: 2121-2133. J.J. Emerson, L.-C. Hsieh, H.-M. Sung, T.-Y. Wang, C.-J. Huang, H.-H. Lu, M.-Y. Lu, S.-H. Wu, and W.-H. Li. (2010) Natural selection on cis and trans regulation in yeasts. Genome Research 20: 826-836. (∗contributed equally) L.-C. Hsieh, S.-I Lin, H.-F. Kuo and T.-J. Chiou. (2010) Abundance of tRNA-derived small RNAs in phosphate-starved Arabidopsis roots. Plant Signaling & Behavior 5:5, 1-3. L.-C. Hsieh, S.-I Lin, A. C. Shih, J.-W. Chen, W.-Y. Lin, C.-Y. Tseng, W.-H. Li and T.-J. Chiou. (2009) Uncovering small RNA-mediated responses to phosphate-deficiency in Arabidopsis by deep sequencing. Plant Physiol. 151: 2120-2132.

期刊論文(∗Corresponding author)

-W. Chen, R. Satange, P.-C. Wu, C.-R. Jhan, C.-K. Chang, K.-R. Chung, M. J. Waring, S.-W. Lin, L.-C. Hsieh* and M.-H. Hou* (2018) Co^II(Chromomycin)₂ complex induces a conformational change of CCG repeats from i-motif to base-extruded DNA duplex. Int. J. Mol. Sci. 19 (9), 2796 (*co-corresponding author) (SCI) [IF=3.687; CHEMISTRY MULTIDISCIPLINARY, 52/171]
-Y. Lin, Y.-Y. Lin, S.-F. Chiang, C. Syu, L.-C. Hsieh* and T.-J. Chiou* (2018) Evolution of microRNA827 targeting in the plant kingdom. New Phytologist. 217 (4): 1712-1725 (*co-corresponding author) (SCI) [IF=7.433; PLANT SCIENCES, 7/223]
-Y. Huang, C.-K. Chang, Y.-F. Kao, C.-H. Chin, C.-W. Ni, H.-Y. Hsu, N.-J. Hu, L.-C. Hsieh, S.-H. Chou, I.-R. Lee, and M.-H. Hou (2017) Parity-dependent hairpin configurations of repetitive DNA sequence promote slippage associated with DNA expansion. Proc. Natl. Acad. Sci. U.S.A. 114 (36): 9535-9540 (SCI) [IF=9.504; MULTIDISCIPLINARY SCIENCES, 5/64]
M. Tan, C.-H. Li, N.-W. Tsao, L.-W. Su, Y.-T. Lu, S. H. Chang, Y. Y. Lin, J.-C. Liou, L.-C. Hsieh, J.-Z. Yu, C.-R. Sheue, S.-Y. Wang, C.-F. Lee and J.-Y. Yang (2016) Phytoplasma SAP11 alters 3-isobutyl-2-methoxypyrazine biosynthesis in Nicotiana benthamiana by suppressing NbOMT1. J Exp. Bot. 67 (14): 4415-4425 (SCI) [IF=5.354; PLANT SCIENCES, 14/223]
L-C. Hsieh, C.-Y. Tseng, L. Luo, F. Ji and H.-C. Lee (2015) Evolutionary Tree Based on Oligonucleotide Frequencies and Conserved Words in 16S and 18S Ribosomal RNA. Biomedical Science Today 2:e11-1-13.
L-C. Hsieh, C.-Y. Tseng, L. Luo, F. Ji and H.-C. Lee (2015) Oligo-distance: A Sequence Distance Determined by Word Frequencies. Biomedical Science Today 1:e5-1-8.
B. Schaefke, J.J. Emerson, T.-Y. Wang, M.-Y. Lu, L.-C. Hsieh, W.-H. Li. (2013) Inheritance of gene expression level and selective constraints on trans- and cis-regulatory changes in yeast. Mol. Biol. Evol.30: 2121-2133.
J.J. Emerson*, L.-C. Hsieh*, H.-M. Sung*, T.-Y. Wang*, C.-J. Huang, H.-H. Lu, M.-Y. Lu, S.-H. Wu, and W.-H. Li. (2010) Natural selection on cis and trans regulation in yeasts. Genome Research 20: 826-836. (∗contributed equally)
L.-C. Hsieh*, S.-I Lin, H.-F. Kuo and T.-J. Chiou. (2010) Abundance of tRNA-derived small RNAs in phosphate-starved Arabidopsis roots. Plant Signaling & Behavior 5:5, 1-3.
L.-C. Hsieh*, S.-I Lin, A. C. Shih, J.-W. Chen, W.-Y. Lin, C.-Y. Tseng, W.-H. Li and T.-J. Chiou. (2009) Uncovering small RNA-mediated responses to phosphate-deficiency in Arabidopsis by deep sequencing. Plant Physiol. 151: 2120-2132.

研討會論文 (∗Invited speaker)
-J. Huang, S.-M. Dai and L.-C. Hsieh (2018) Transcriptome analysis of permethrin-resistant Aedes aegypti in Taiwan. The 39th Annual Meeting of Taiwan Entomological Society. National Cheng Kung University, Tainan, Taiwan. 2018 Oct. 20-21 Y.-C. Huang, W.-C. Chao and L.-C. Hsieh (2018) Identification of Sepsis Pathogens in the Plasma by Next Generation Sequencing. International Conference on Computational Biology and Bioinformatics. Tokyo, Japan. September 5-6 Y.-C. Huang, Y.-Z. Huang, T.-H. Lee and L.-C. Hsieh (2017) Investigation of differently expressed genes and related pathways in brain in response to cold stress in Oryzias dancena by de novo assembly and analysis of RNA-Seq data. 2017 International Symposium on Evolutionary Genomics and Bioinformatics (ISEGB 2017). Hualian, Taiwan. November 5-6 Y-C. Huang, T.-H. Lee and L.-C. Hsieh (2016) Transcriptome analysis reveals the low-temperature-induced genes and pathways in brains of the brackish medaka, Oryzias dancena. 2016 International Symposium on Evolutionary Genomics and Bioinformatics (ISEGB 2016). Kaohsiung, Taiwan. November 24-25 H-T. Yang, Y.-M. Hsiao and L.-C. Hsieh (2016) Identification of microRNA transcription start sites of vertebrates using RNA-seq data and sequence features. 2016 International Symposium on Evolutionary Genomics and Bioinformatics (ISEGB 2016). Kaohsiung, Taiwan. November 24-25 Y-C. Hsieh and C.-K. Lai (2015) Identification of chimpanzee microRNA transcription start sites and divergence of the regulation of miRNA transcription between human and chimpanzee. 2015 Annual Meeting of Society for Molecular Biology and Evolution (SMBE 2015). Vienna, Austria. June 12-16 W-Y. Lin, Y.-Y. Lin, L.-C. Hsieh, T.-J. Chiou (2015) The evolution of microRNA827 targeting in plant kingdom. The 26^th INTERNATIONAL CONFERENCE ON ARABIDOPSIS RESEARCH (ICAR 2015). Paris, France. June 5-9 H-H. Chu, C.-K. Lai and L.-C. Hsieh (2014) Identification of MicroRNA Promoters from CAGE Data and Sequence Features. 2014 International Symposium on Evolutionary Genomics and Bioinformatics (ISEGB 2014). Tainan, Taiwan. November 7-8 L-C. Hsieh (2014) Identification of promoter regions of intergenic microRNAs from next-generation transcriptome sequencing data. Biology Inspired Theoretical Sciences Congress 2014 (BITS 2014). Taoyuan, Taiwan. June 26-28 (Invited Lecture) H.-Y. Fang, Y.-P. Hsu, H.-H. Chu and L.-C. Hsieh* (2013) Using high-throughput sequencing data to predict the transcriptional start sites of mouse microRNAs. Proceedings of the Taiwan Academic Network Conference, pp. 1029 -1034. Taichung, Taiwan. October 23-25 Li-Ching Hsieh, Yi-Chiao Fang, Wen-Hsiung Li and Arthur Chun-Chieh Shih. (2012) Not Genetic Hitchhiking but Positive Selection Plays a Major Role in Influenza A Hemagglutinin Evolution. 2012 Annual Meeting of Society for Molecular Biology and Evolution (SMBE 2012). Dublin, Ireland. June 23-26 Tzi-Yuan Wang, Huang-Mo Sung, Tsunglin Liu, Li-Ching Hsieh and Wen-Hsiung Li. (2011) Trans vs. Cis Changes in Yeast Gene Expression Evolution. 2011 Annual Meeting of Society for Molecular Biology and Evolution (SMBE 2011). Kyoto, Japan. July 26-30

研討會論文 (∗Invited speaker)

-J. Huang, S.-M. Dai and L.-C. Hsieh (2018) Transcriptome analysis of permethrin-resistant Aedes aegypti in Taiwan. The 39th Annual Meeting of Taiwan Entomological Society. National Cheng Kung University, Tainan, Taiwan. 2018 Oct. 20-21
Y.-C. Huang, W.-C. Chao and L.-C. Hsieh (2018) Identification of Sepsis Pathogens in the Plasma by Next Generation Sequencing. International Conference on Computational Biology and Bioinformatics. Tokyo, Japan. September 5-6
Y.-C. Huang, Y.-Z. Huang, T.-H. Lee and L.-C. Hsieh (2017) Investigation of differently expressed genes and related pathways in brain in response to cold stress in Oryzias dancena by de novo assembly and analysis of RNA-Seq data. 2017 International Symposium on Evolutionary Genomics and Bioinformatics (ISEGB 2017). Hualian, Taiwan. November 5-6
Y-C. Huang, T.-H. Lee and L.-C. Hsieh (2016) Transcriptome analysis reveals the low-temperature-induced genes and pathways in brains of the brackish medaka, Oryzias dancena. 2016 International Symposium on Evolutionary Genomics and Bioinformatics (ISEGB 2016). Kaohsiung, Taiwan. November 24-25
H-T. Yang, Y.-M. Hsiao and L.-C. Hsieh (2016) Identification of microRNA transcription start sites of vertebrates using RNA-seq data and sequence features. 2016 International Symposium on Evolutionary Genomics and Bioinformatics (ISEGB 2016). Kaohsiung, Taiwan. November 24-25
Y-C. Hsieh and C.-K. Lai (2015) Identification of chimpanzee microRNA transcription start sites and divergence of the regulation of miRNA transcription between human and chimpanzee. 2015 Annual Meeting of Society for Molecular Biology and Evolution (SMBE 2015). Vienna, Austria. June 12-16
W-Y. Lin, Y.-Y. Lin, L.-C. Hsieh, T.-J. Chiou (2015) The evolution of microRNA827 targeting in plant kingdom. The 26^th INTERNATIONAL CONFERENCE ON ARABIDOPSIS RESEARCH (ICAR 2015). Paris, France. June 5-9
H-H. Chu, C.-K. Lai and L.-C. Hsieh (2014) Identification of MicroRNA Promoters from CAGE Data and Sequence Features. 2014 International Symposium on Evolutionary Genomics and Bioinformatics (ISEGB 2014). Tainan, Taiwan. November 7-8
L-C. Hsieh (2014) Identification of promoter regions of intergenic microRNAs from next-generation transcriptome sequencing data. Biology Inspired Theoretical Sciences Congress 2014 (BITS 2014). Taoyuan, Taiwan. June 26-28 (Invited Lecture)
H.-Y. Fang, Y.-P. Hsu, H.-H. Chu and L.-C. Hsieh* (2013) Using high-throughput sequencing data to predict the transcriptional start sites of mouse microRNAs. Proceedings of the Taiwan Academic Network Conference, pp. 1029 -1034. Taichung, Taiwan. October 23-25
Li-Ching Hsieh, Yi-Chiao Fang, Wen-Hsiung Li and Arthur Chun-Chieh Shih. (2012) Not Genetic Hitchhiking but Positive Selection Plays a Major Role in Influenza A Hemagglutinin Evolution. 2012 Annual Meeting of Society for Molecular Biology and Evolution (SMBE 2012). Dublin, Ireland. June 23-26
Tzi-Yuan Wang, Huang-Mo Sung, Tsunglin Liu, Li-Ching Hsieh and Wen-Hsiung Li. (2011) Trans vs. Cis Changes in Yeast Gene Expression Evolution. 2011 Annual Meeting of Society for Molecular Biology and Evolution (SMBE 2011). Kyoto, Japan. July 26-30

謝立青

副教授

研究方向:Computational Biology,Evolutionary Biology Comparative Genomics,NGS data analysis

基因體暨生物資訊學研究所

Institute of Genomics and Bioinformatics

興大首頁
National Chung Hsing University

醫科博班
Ph.D. Program in Medical Biotechnology

生命科學院
College of Life Sciences

基因體暨生物資訊學研究所 Institute of Genomics and Bioinformatics

興大首頁National Chung Hsing University

醫科博班Ph.D. Program in Medical Biotechnology

生命科學院College of Life Sciences

侯明宏

研究室 ： 藥物設計及化學生物核心實驗室

簡要經歷

榮譽：

教學與研究

教授課程:

研究主題

著作

朱彥煒

簡要經歷

榮譽

教學與研究

教授課程:

著作

陳盈璁

簡要經歷

榮譽

教學與研究

教授課程:

著作

陳玉婷

榮譽

簡要經歷

教學與研究

教授課程:

著作

劉俊宏

榮譽

簡要經歷

專業訓練

學術演講

教學與研究

研究主題

著作

謝立青

簡要經歷

教授課程:

研究主題

著作

基因體暨生物資訊學研究所

Institute of Genomics and Bioinformatics

興大首頁
National Chung Hsing University

醫科博班
Ph.D. Program in Medical Biotechnology

生命科學院
College of Life Sciences

研究室：藥物設計及化學生物核心實驗室