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楊進木

楊進木 Yang, Jinn-Moon

電子郵件／E-mail：moon@faculty.nctu.edu.tw

服務單位／Department：生物科技學院 ／ 生物科技學系

著作期間／Publish Period：2001-01-01 - 2014-11-16

著作統計／Statistics

Article（68）
Books（1）
Others（2）
Patents（2）
Plan（25）
Proceedings Paper（18）
Thesis（47）

Article

序號
No.		 標題
Title		 著作日期
Date
1 KDM4B as a Target for Prostate Cancer: Structural Analysis and Selective Inhibition by a Novel Inhibitor
 2014-07-24
2 DNA Mimic Proteins: Functions, Structures, and Bioinformatic Analysis
 2014-05-13
3 Deformation mechanisms in ultrahigh-strength and high-ductility nanostructured FeMnAlC alloy
 2014-02-15
4 Staphylococcus aureus protein SAUGI acts as a uracil-DNA glycosylase inhibitor
 2014-01-01
5 Genome-wide structural modelling of TCR-pMHC interactions
 2013-10-16
6 Moiety-Linkage Map Reveals Selective Nonbisphosphonate Inhibitors of Human Geranylgeranyl Diphosphate Synthase
 2013-09-01
7 Total Synthetic Protoapigenone WYC02 Inhibits Cervical Cancer Cell Proliferation and Tumour Growth through PIK3 Signalling Pathway
 2013-07-01
8 Pathway-based Screening Strategy for Multitarget Inhibitors of Diverse Proteins in Metabolic Pathways
 2013-07-01
9 Parallel Screening of Wild-Type and Drug-Resistant Targets for Anti-Resistance Neuraminidase Inhibitors
 2013-02-20
10 KIDFamMap: a database of kinase-inhibitor-disease family maps for kinase inhibitor selectivity and binding mechanisms
 2013-01-01
11 Synthesis of acylguanidine zanamivir derivatives as neuraminidase inhibitors and the evaluation of their bio-activities
 2013-01-01
12 Template-based scoring functions for visualising biological insights of H-2K(b)-peptide-TCR complexes 2013-01-01
13 Antigenic sites of H1N1 influenza virus hemagglutinin revealed by natural isolates and inhibition assays
 2012-09-28
14 MoNetFamily: a web server to infer homologous modules and module-module interaction networks in vertebrates
 2012-07-01
15 Steric recognition of T-cell receptor contact residues is required to map mutant epitopes by immunoinformatical programmes
 2012-06-01
16 Roles of Amino Acids in the Escherichia coli Octaprenyl Diphosphate Synthase Active Site Probed by Structure-Guided Site-Directed Mutagenesis
 2012-04-24
17 Structures of Helicobacter pylori Shikimate Kinase Reveal a Selective Inhibitor-Induced-Fit Mechanism
 2012-03-16
18 Core Site-Moiety Maps Reveal Inhibitors and Binding Mechanisms of Orthologous Proteins by Screening Compound Libraries
 2012-02-29
19 GemAffinity: a scoring function for predicting binding affinity and Virtual Screening 2012-01-01
20 The Relevance of Protein-Ligand Interaction Profiles in Computer-Aided Novel Compound Design and Applications 2011-09-01
21 PAComplex: a web server to infer peptide antigen families and binding models from TCR-pMHC complexes
 2011-07-01
22 7-Chloro-6-piperidin-1-yl-quinoline-5,8-dione (PT-262), a novel ROCK inhibitor blocks cytoskeleton function and cell migration
 2011-04-01
23 iGEMDOCK: a graphical environment of enhancing GEMDOCK using pharmacological interactions and post-screening analysis
 2011-02-15
24 Changed epitopes drive the antigenic drift for influenza A (H3N2) viruses
 2011-02-15
25 3D-interologs: an evolution database of physical protein- protein interactions across multiple genomes
 2010-12-01
26 A Dynamic Subspace Method for Hyperspectral Image Classification
 2010-07-01
27 SiMMap: a web server for inferring site-moiety map to recognize interaction preferences between protein pockets and compound moieties
 2010-07-01
28 PCFamily: a web server for searching homologous protein complexes
 2010-07-01
29 The cAMP Receptor-Like Protein CLP Is a Novel c-di-GMP Receptor Linking Cell-Cell Signaling to Virulence Gene Expression in Xanthomonas campestris
 2010-02-26
30 A Polarizer-Free Electro-Optical Switch Using Dye-Doped Liquid Crystal Gels
 2009-12-01
31 (PS)(2)-v2: template-based protein structure prediction server
 2009-10-31
32 CAPIH: A Web interface for comparative analyses and visualization of host-HIV protein-protein interactions
 2009-08-12
33 PPISearch: a web server for searching homologous protein-protein interactions across multiple species
 2009-07-01
34 Kernel Nonparametric Weighted Feature Extraction for Hyperspectral Image Classification
 2009-04-01
35 Aurintricarboxylic acid inhibits influenza virus neuraminidase
 2009-02-01
36 Co-evolution positions and rules for antigenic variants of human influenza A/H3N2 viruses
 2009-01-30
37 ATRIPPI: An atom-residue preference scoring function for protein-protein interactions
 2009-01-01
38 GemAffinity: A Scoring Function for Predicting Binding Affinity and Virtual Screening
 2009-01-01
39 3D-interologs: A protein-protein interacting evolution database across multiple species
 2009-01-01
40 Structural simulation and protein engineering to convert an endo-chitosanase to an exo-chitosanase
 2008-09-01
41 Soft energy function and generic evolutionary method for discriminating native from nonnative protein conformations
 2008-07-15
42 Crystal structure of a secondary vitamin D(3) binding site of milk beta-lactoglobulin
 2008-05-15
43 A polarizer-free flexible and reflective electrooptical switch using dye-doped liquid crystal gels
 2008-02-04
44 Evolutionary conservation of DNA-contact residues in DNA-binding domains
 2008-01-01
45 fastSCOP: a fast web server for recognizing protein structural domains and SCOP superfamilies
 2007-07-01
46 3D-partner: a web server to infer interacting partners and binding models
 2007-07-01
47 Combinatorial Computational Approaches to Identify Tetracycline Derivatives as Flavivirus Inhibitors
 2007-05-09
48 A Gaussian Evolutionary Method for predicting protein-protein interaction sites 2007-01-01
49 Kappa-alpha plot derived structural alphabet and BLOSUM-like substitution matrix for rapid search of protein structure database
 2007-01-01
50 Triplet exciton energy transfer in polyfluorene doped with heavy metal complexes studied using photoluminescence and photoinduced absorption 2006-12-01
51 (PS)(2): protein structure prediction server
 2006-07-01
52 Protein structure database search and evolutionary classification
 2006-01-01
53 Consensus scoring criteria for improving enrichment in virtual screening
 2005-07-01
54 A pharmacophore-based evolutionary approach for screening selective estrogen receptor modulators
 2005-05-01
55 Some issues of designing genetic algorithms for traveling salesman problems
 2004-11-01
56 An evolutionary algorithm for large traveling salesman problems
 2004-08-01
57 An evolutionary approach for gene expression patterns
 2004-06-01
58 GEMDOCK: A generic evolutionary method for molecular docking
 2004-05-01
59 Development and evaluation of a generic evolutionary method for protein-ligand docking
 2004-04-30
60 Finding regularity in various types of secondary protein structures
 2003-11-01
61 Relationship between protein structures and disulfide bonding patterns
 2003-10-01
62 Modeling the binding and inhibition mechanism of nucleotides and sulfotransferase using molecular docking 2003-06-01
63 Heterogeneous selection genetic algorithms for traveling salesman problems
 2003-06-01
64 Fine-grained protein fold assignment by support vector machines using generalized npeptide coding schemes and jury voting from multiple-parameter sets
 2003-03-01
65 GEM: A Gaussian evolutionary method for predicting protein side-chain conformations
 2002-08-01
66 A robust evolutionary algorithm for global optimization
 2002-01-01
67 Optical coating designs using the family competition evolutionary algorithm
 2001-12-01
68 A robust evolutionary algorithm for training neural networks
 2001-01-01

Books

序號
No.		 標題
Title		 著作日期
Date
1 國立交通大學生物科技學系楊進木教師升等送審資料論文集 2007

Others

序號
No.		 標題
Title		 著作日期
Date
1 SP-101, a novel gefitinib derivative induces apoptosis and tumor inhibition
 2013-04-01
2 Anti-influenza drug discovery 2007-07-01

Patents

序號
No.		 標題
Title		 著作日期
Date
1 化合物在製備神經氨酸酶抑制劑之用途
 2014-11-16
2 藥物篩選方法
 2014-07-16

Plan

序號
No.		 標題
Title		 著作日期
Date
1 生技及醫藥服務平台於生技產品開發(I) 2014
2 分子間藥理作用介面家族應用在磷酸化酵素-藥物-疾病網絡與機制之研究 2014
3 交互作用積木闡釋細胞內分子交互作用與生物網路體 2014
4 以結構為基礎之多標靶藥理用於新型抗生素之開發與最佳化(III) 2013
5 藥物-蛋白質網路與結構系統生物探討癌症與神經系統失調---藥物-蛋白質同源網路探討藥物開發與結合機制(總計畫及子計畫1)(III) 2013
6 分子間藥理作用介面家族應用在磷酸化酵素-藥物-疾病網絡與機制之研究 2013
7 分子間藥理作用介面家族應用在磷酸化酵素-藥物-疾病網絡與機制之研究 2012
8 以結構為基礎之多標靶藥理用於新型抗生素之開發與最佳化(II) 2012
9 藥物-蛋白質網路與結構系統生物探討癌症與神經系統失調---藥物-蛋白質同源網路探討藥物開發與結合機制(總計畫及子計畫1)(II) 2012
10 以結構為基礎之多標靶藥理用於新型抗生素之開發與最佳化(I) 2011
11 藥物-蛋白質網路與結構系統生物探討癌症與神經系統失調-藥物-蛋白質同源網路探討藥物開發與結合機制(總計畫及子計畫I)(I) 2011
12 分子間藥理作用介面家族應用在磷酸化酵素-藥物-疾病網絡與機制之研究
 2011
13 分子交互作用網路及結構功能演化在醫藥應用之研究( III ) 2010
14 生物系統內分子交互作用及生化路徑之大規模分析---總計畫與子計畫一:以生化網路演化關係研究分子交互作用與生化路徑(III) 2010
15 生物系統內分子交互作用及生化路徑之大規模分析---(總計畫與子計畫一)以生化網路演化關係研究分子交互作用與生化路徑(II) 2009
16 分子交互作用網路及結構功能演化在醫藥應用之研究(II) 2009
17 分子交互作用網路及結構功能演化在醫藥應用之研究(I) 2008
18 生物系統內分子交互作用及生化路徑之大規模分析---(總計畫與子計畫一):以生化網路演化關係研究分子交互作用與生化路徑(I) 2008
19 QSAR與虛擬藥物篩選之研究(III)
 2007
20 QSAR與虛擬藥物篩選之研究(II) 2006
21 QSAR與虛擬藥物篩選之研究(I)
 2005
22 蛋白質交互作用及Pathway預測系統之研究與建構(II)
 2004
23 蛋白質交互作用及Pathway預測系統之研究與建構(I) 2003
24 登革熱抑制劑快速篩選系統之建構
 2003
25 演化式方法快速藥物篩選與毒性預測
 2002

Proceedings Paper

序號
No.		 標題
Title		 著作日期
Date
1 Inferring homologous protein-protein interactions through pair position specific scoring matrix
 2013-01-21
2 Inferring homologous protein-protein interactions through pair position specific scoring matrix
 2013-01-21
3 Rank-based interolog mapping for predicting protein-protein interactions between genomes 2013-01-01
4 Space-related pharma-motifs for fast search of protein binding motifs and polypharmacological targets
 2012-12-13
5 TSCC: Two-Stage Combinatorial Clustering for virtual screening using protein-ligand interactions and physicochemical features
 2010-12-02
6 ATRIPPI: AN ATOM-RESIDUE PREFERENCE SCORING FUNCTION FOR PROTEIN-PROTEIN INTERACTIONS 2010-06-01
7 Rational Design for Crystallization of beta-Lactoglobulin and Vitamin D(3) Complex: Revealing a Secondary Binding Site
 2008-12-01
8 PhosphoPOINT: a comprehensive human kinase interactome and phospho-protein database
 2008-08-15
9 Polarizer-free Liquid Crystal Displays 2008-01-01
10 Flexible and reflective polarizer-free liquid crystal displays using dye-doped liquid crystal gels
 2008-01-01
11 Flexible and reflective polarizer-free liquid crystal displays using dye-doped liquid crystal gels - art. no. 691108 2008-01-01
12 GEMSCORE: A new empirical energy function for protein folding 2005-01-01
13 Consensus scoring criteria in structure-based virtual screening 2005-01-01
14 GEMPLS: A new QSAR method combining generic evolutionary method and partial least squares 2005-01-01
15 A pharmacophore-based evolutionary approach for screening estrogen receptor antagonists 2004-01-01
16 Comparative molecular binding energy analysis of HIV-1 protease inhibitors using genetic algorithm-based partial least squares method 2004-01-01
17 An evolutionary approach with pharmacophore-based scoring functions for virtual database screening 2004-01-01
18 An evolutionary approach for molecular docking 2003-01-01

Thesis

序號
No.		 標題
Title		 著作日期
Date
1 以差異表現模組探討二十二種腫瘤型態的腫瘤異質性 2014
2 蛋白質間交互作用小分子抑制劑選擇性促使化學藥劑抗藥性或缺乏半胱胺酸蛋白酶-3之癌細胞死亡 2013
3 動態同源映射網路揭示細胞行為及疾病機制 2013
4 同源藥理揭示舊藥新用與蛋白質化合物交互作用網路 2013
5 iGemdock 2.0 與 SiMMap: 篩選後分析方法於以結構為基礎之藥物設計 2013
6 利用同源蛋白質-化合物複合物揭露現有藥物之新用途 2013
7 探索激酶抑制劑之選擇性與結合機制以開發抗癌藥物 2013
8 以環境─官能基關係開發酪胺酸激酶抑制劑 2012
9 以演化核心模組與蛋白質交互作用網路推導全面性模組 2012
10 全基因組之結構TCR-pMHC模型剖析跨病原體同源胜肽抗原家族 2012
11 以官能基為基礎之區域官能基地圖
 2011
12 同源蛋白質交互作用與複合體剖析蛋白質交互作用體行為
 2011
13 區域官能基地圖揭露人類蛋白激酶之選擇性與機制 2011
14 同源網路模組家族網站之設計和實作:以同源模組研究脊椎動物的模組交互作用網路
 2011
15 利用核心區域官能基地圖開發組蛋白去甲基化酶家族之多標靶抑制劑及探討結合機制 2011
16 資料探勘與篩選後分析方法於多方面生化應用化合物之研究
 2010
17 A型H3N2流行性感冒病毒之基因演化與抗原性演化之關聯性研究
 2010
18 同藥理同源途徑蛋白質對多標靶抑制劑之研發
 2010
19 A型H1N1流行性感冒病毒紅血球凝集素之基因與抗原分析並與H3N2病毒之比較
 2010
20 區域官能基地圖對藥物最佳化的網路服務：流感病毒神經胺酸酶為例
 2010
21 以蛋白質-蛋白質交互作用家族為基礎建立模板導向之同源模組
 2010
22 蛋白質-配體結合模式預測與其結合區域定性研究
 2009
23 遠距離同源蛋白之序列比對在蛋白質功能與三級結構預測之應用 2009
24 利用空間相關結構片段快速尋找蛋白質結合片段與環境之研究
 2009
25 以模板導向方法建立蛋白質-蛋白質交互作用家族
 2009
26 同源蛋白質-蛋白質交互作用之研究
 2008
27 以蛋白質結構字元集研究結構與功能之相關性
 2008
28 以功能基團計分矩陣預測蛋白質與去氧核醣核酸交互作用之結合模式
 2008
29 以高斯演化方式預測蛋白質-蛋白質嵌合位置
 2008
30 以模板為基礎的新能量函式預測蛋白質交互作用 2007
31 發展新的多序列取樣方法評估胺基酸位置保守性以預測蛋白質－受質結合位 2007
32 蛋白質與配體之間親和力之分析 2006
33 iGEMDOCK: A Graphical-Automatic Drug Design System for Docking, Screening and Post-Analysis 2006
34 蛋白質二級結構的規則性及其應用
 2005
35 藉由建立基因演化與抗原性漂移之關聯性預測A型H3N2流行性感冒病毒之抗原性變異
 2005
36 ATP作用區域為基之蛋白質分群與交互作用分析
 2005
37 利用蛋白質-配體交互作用與化合物結構為基礎之虛擬藥物篩選群集分析
 2005
38 結構功能區域交互同源性為基之蛋白質功能區域及交互作用預測
 2005
39 PiSA-BLAST:快速蛋白質結構比對與資料庫搜尋工具
 2004
40 蛋白質結構摺疊新能量函式的最佳化
 2004
41 人類乙醯膽鹼酯脢 (huAChE) 和Arthrobacter globiformis 組織胺氧化酵素 (AGHO) 之 QSAR 模型研究
 2004
42 LigSeeSVM：結合Support Vector Machines與資料融合在活性配體為基之藥物篩選及GPCR與GABAA之實際應用
 2004
43 利用蛋白質結構中的功能區域交互作用推測蛋白質交互作用
 2004
44 GEMDOCK之驗證與應用以及資料融合在虛擬藥物篩選之應用
 2003
45 GEMDOCK於虛擬藥物資料庫篩選之功能增進及套膜蛋白與醯亞胺水解酵素之實際應用
 2003
46 MuLiSA: 多重配體結構比對為基礎之蛋白質功能片段及重要氨基酸之預測分析
 2003
47 預測蛋白質間交互作用之新能量模式 2002
生物科技學院