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黃憲達

黃憲達 Huang, Hsien-Da

電子郵件／E-mail：bryan@mail.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：2003-12-01 - 2014-10-23

著作統計／Statistics

Article（79）
Books（1）
Others（2）
Plan（16）
Proceedings Paper（7）
Thesis（37）

Article

序號
No.		 標題
Title		 著作日期
Date
1 Bacterial Communities in Semen from Men of Infertile Couples: Metagenomic Sequencing Reveals Relationships of Seminal Microbiota to Semen Quality 2014-10-23
2 COL11A1 promotes tumor progression and predicts poor clinical outcome in ovarian cancer 2014-06-26
3 CRP represses the CRISPR/Cas system in Escherichia coli: evidence that endogenous CRISPR spacers impede phage P1 replication
 2014-06-01
4 IncRNAMap: A map of putative regulatory functions in the long non-coding transcriptome
 2014-06-01
5 RegPhos 2.0: an updated resource to explore protein kinase-substrate phosphorylation networks in mammals
 2014-04-25
6 Investigating microRNA-Target Interaction-Supported Tissues in Human Cancer Tissues Based on miRNA and Target Gene Expression Profiling
 2014-04-22
7 The effects of actin cytoskeleton perturbation on keratin intermediate filament formation in mesenChymal stem/stromal cells
 2014-04-01
8 miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions
 2014-01-01
9 Large-Scale Investigation of Human TF-miRNA Relations Based on Coexpression Profiles
 2014-01-01
10 Systematic Analysis of the Association between Gut Flora and Obesity through High-Throughput Sequencing and Bioinformatics Approaches
 2014-01-01
11 Fungal Small RNAs Suppress Plant Immunity by Hijacking Host RNA Interference Pathways
 2013-10-04
12 Phosphoproteome profiling of the sexually transmitted pathogen Trichomonas vaginalis
 2013-10-01
13 Sterol Regulatory Element Binding Protein 2 Activation of NLRP3 Inflammasome in Endothelium Mediates Hemodynamic-Induced Atherosclerosis Susceptibility
 2013-08-06
14 Histone Demethylase RBP2 Promotes Lung Tumorigenesis and Cancer Metastasis
 2013-08-01
15 YjcC, a c-di-GMP Phosphodiesterase Protein, Regulates the Oxidative Stress Response and Virulence of Klebsiella pneumoniae CG43
 2013-07-23
16 Transcribed pseudogene psi PPM1K generates endogenous siRNA to suppress oncogenic cell growth in hepatocellular carcinoma
 2013-04-01
17 The activation of directional stem cell motility by green light-emitting diode irradiation
 2013-03-01
18 Hypoxia-responsive miRNAs target argonaute 1 to promote angiogenesis
 2013-03-01
19 pseudoMap: an innovative and comprehensive resource for identification of siRNA-mediated mechanisms in human transcribed pseudogenes
 2013-02-08
20 dbPTM 3.0: an informative resource for investigating substrate site specificity and functional association of protein post-translational modifications
 2013-01-01
21 EuLoc: a web-server for accurately predict protein subcellular localization in eukaryotes by incorporating various features of sequence segments into the general form of Chou's PseAAC
 2013-01-01
22 Functional Analyses of Endometriosis-Related Polymorphisms in the Estrogen Synthesis and Metabolism-Related Genes
 2012-11-06
23 dbSNO: a database of cysteine S-nitrosylation
 2012-09-01
24 TET1 Suppresses Cancer Invasion by Activating the Tissue Inhibitors of Metalloproteinases
 2012-09-01
25 MicroRNA-122 plays a critical role in liver homeostasis and hepatocarcinogenesis
 2012-08-01
26 Let-7b is a novel regulator of hepatitis C virus replication
 2012-08-01
27 miR-103/107 Promote Metastasis of Colorectal Cancer by Targeting the Metastasis Suppressors DAPK and KLF4
 2012-07-15
28 Patient delivery quality assurance for linac-based IMRT and helical tomotherapy using solid state detectors
 2011-12-01
29 Incorporating Evolutionary Information and Functional Domains for Identifying RNA Splicing Factors in Humans
 2011-11-16
30 RNAcentral: A vision for an international database of RNA sequences
 2011-11-01
31 Identifying transcriptional start sites of human microRNAs based on high-throughput sequencing data
 2011-11-01
32 Flow-Dependent Regulation of Kruppel-Like Factor 2 Is Mediated by MicroRNA-92a
 2011-08-02
33 miRTar: an integrated system for identifying miRNA-target interactions in human
 2011-07-26
34 SNOSite: Exploiting Maximal Dependence Decomposition to Identify Cysteine S-Nitrosylation with Substrate Site Specificity
 2011-07-15
35 Small Molecule Amiloride Modulates Oncogenic RNA Alternative Splicing to Devitalize Human Cancer Cells
 2011-06-09
36 Clusters of Nucleotide Substitutions and Insertion/Deletion Mutations Are Associated with Repeat Sequences
 2011-06-01
37 Arabidopsis Argonaute 2 Regulates Innate Immunity via miRNA393*-Mediated Silencing of a Golgi-Localized SNARE Gene, MEMB12
 2011-05-06
38 Characterization and prediction of mRNA polyadenylation sites in human genes
 2011-04-01
39 miRTarBase: a database curates experimentally validated microRNA-target interactions
 2011-01-01
40 RegPhos: a system to explore the protein kinase-substrate phosphorylation network in humans
 2011-01-01
41 N-Ace: Using Solvent Accessibility and Physicochemical Properties to Identify Protein N-Acetylation Sites
 2010-11-30
42 A novel role of CPEB3 in regulating EGFR gene transcription via association with Stat5b in neurons
 2010-11-01
43 Global Analyses of Small Interfering RNAs Derived from Bamboo mosaic virus and Its Associated Satellite RNAs in Different Plants
 2010-08-02
44 Prediction of small non-coding RNA in bacterial genomes using support vector machines
 2010-08-01
45 An expert system to identify co-regulated gene groups from time-lagged gene clusters using cell cycle expression data
 2010-03-15
46 Incorporating Support Vector Machine for Identifying Protein Tyrosine Sulfation Sites
 2009-11-30
47 miRExpress: Analyzing high-throughput sequencing data for profiling microRNA expression
 2009-10-12
48 Incorporating Structural Characteristics for Identification of Protein Methylation Sites
 2009-07-15
49 FMM: a web server for metabolic pathway reconstruction and comparative analysis
 2009-07-01
50 An expert system to predict protein thermostability using decision tree
 2009-07-01
51 Computational identification of riboswitches based on RNA conserved functional sequences and conformations
 2009-07-01
52 MicroRNA-122, a Tumor Suppressor MicroRNA that Regulates Intrahepatic Metastasis of Hepatocellular Carcinoma
 2009-05-01
53 sRNAMap: genomic maps for small non-coding RNAs, their regulators and their targets in microbial genomes
 2009-01-01
54 Detecting LTR structures in human genomic sequences using profile hidden Markov models
 2009-01-01
55 Identifying Discriminative Amino Acids Within the Hemagglutinin of Human Influenza A H5N1 Virus Using a Decision Tree
 2008-11-01
56 RNALogo: a new approach to display structural RNA alignment
 2008-07-01
57 miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes
 2008-01-01
58 KinasePhos 2.0: a web server for identifying protein kinase-specific phosphorylation sites based on sequences and coupling patterns
 2007-07-01
59 Primer design for multiplex PCR using a genetic algorithm
 2007-07-01
60 ViTa: prediction of host microRNAs targets on viruses
 2007-01-01
61 Database to dynamically aid probe design for virus identification
 2006-10-01
62 An agent-based system to discover protein-protein interactions, identify protein complexes and proteins with multiple peptide mass fingerprints
 2006-07-15
63 RNAMST: efficient and flexible approach for identifying RNA structural homologs
 2006-07-01
64 ProKware: integrated software for presenting protein structural properties in protein tertiary structures
 2006-07-01
65 RegRNA: an integrated web server for identifying regulatory RNA motifs and elements
 2006-07-01
66 Biological data warehousing system for identifying transcriptional regulatory sites from gene expressions of microarray data
 2006-07-01
67 Detection of discriminative sequence motifs in proteins obtained from prokaryotes grown at various temperatures
 2006-04-30
68 miRNAMap: genomic maps of microRNA genes and their target genes in mammalian genomes
 2006-01-01
69 dbPTM: an information repository of protein post-translational modification
 2006-01-01
70 Discovering common structural motifs of ribosomal RNA secondary structures in prokaryotes 2005-08-01
71 Incorporating hidden Markov models for identifying protein kinase-specific phosphorylation sites
 2005-07-30
72 KinasePhos: a web tool for identifying protein kinase-specific phosphorylation sites
 2005-07-01
73 MultiProtident: Identifying proteins using database search and protein-protein interactions
 2005-05-01
74 SpliceInfo: an information repository for mRNA alternative splicing in human genome
 2005-01-01
75 A computational approach to discover differential cooperation of regulatory sites in functionally related genes in yeast genome
 2004-11-01
76 i-Genome: A database to summarize oligonucleotide data in genomes
 2004-10-09
77 Identifying the combination of genetic factors that determine susceptibility to cervical cancer
 2004-03-01
78 Identifying transcriptional regulatory sites in the human genome using an integrated system
 2004-03-01
79 Computing motif correlations in proteins
 2003-12-01

Books

序號
No.		 標題
Title		 著作日期
Date
1 國立交通大學生物資訊暨系統生物研究所教師升等送審著作論文集 2009

Others

序號
No.		 標題
Title		 著作日期
Date
1 Deep Sequencing and Bioinformatics Analysis of Endothelial MicroRNA under Hypoxia Stress
 2010-04-01
2 microRNA: A Master Regulator of Cellular Processes for Bioengineering Systems
 2010-01-01

Plan

序號
No.		 標題
Title		 著作日期
Date
1 建立世界級MicroRNA生物資料庫和MicroRNA-基因調控網路分析平台 2014
2 建立一個新穎的生物資訊平台來預測與驗證做為早期診斷的microRNA 生物標記組合 2014
3 運用系統生物學方法研究sRNAs在大腸桿菌的網路調控功能---運用資料庫系統、資料整合與知識探勘於探討細菌中sRNAs的轉錄與調控功能(總計畫及子計畫1)(III) 2013
4 建立世界級MicroRNA生物資料庫和MicroRNA-基因調控網路分析平台 2013
5 運用系統生物學方法研究sRNAs在大腸桿菌的網路調控功能---運用資料庫系統、資料整合與知識探勘於探討細菌中sRNAs的轉錄與調控功能(總計畫及子計畫1)(II) 2012
6 建立世界級MicroRNA生物資料庫和MicroRNA-基因調控網路分析平台 2012
7 重建人類microRNA基因調控網路 2011
8 運用系統生物學方法研究sRNAs在大腸桿菌的網路調控功能---運用資料庫系統、資料整合與知識探勘於探討細菌中sRNAs的轉錄與調控功能(總計畫及子計畫I)(I) 2011
9 重建人類microRNA基因調控網路 2010
10 生物系統內分子交互作用及生化路徑之大規模分析---子計畫三:建立大型分子交互作用資料庫系統與資料探索(III)
 2010
11 生物系統內分子交互作用及生化路徑之大規模分析---(子計畫三)建立大型分子交互作用資料庫系統與資料探索(II) 2009
12 重建人類microRNA基因調控網路 2009
13 人類與老鼠microRNAs之預測、驗證、與功能性分析 2008
14 生物系統內分子交互作用及生化路徑之大規模分析---(子計畫三):建立大型分子交互作用資料庫系統與資料探索(I) 2008
15 人類與老鼠microRNAs之預測、驗證與功能性分析 2007
16 人類與老鼠microRNAs之預測、驗證、與功能性分析 2006

Proceedings Paper

序號
No.		 標題
Title		 著作日期
Date
1 A new method for post Genome-Wide Association Study (GWAS) analysis of colorectal cancer in Taiwan
 2013-04-10
2 An enhanced computational platform for investigating the roles of regulatory RNA and for identifying functional RNA motifs
 2013-01-21
3 An enhanced computational platform for investigating the roles of regulatory RNA and for identifying functional RNA motifs
 2013-01-21
4 A computational approach for identifying microRNA-target interactions using high-throughput CLIP and PAR-CLIP sequencing
 2013-01-21
5 Clinical detection of human probiotics and human pathogenic bacteria by using a novel high-throughput platform based on next generation sequencing 2013-01-01
6 Identifying transcriptional regulatory sites in the human genome using an integrated computation 2004-01-01
7 RgS-Miner: A biological data warehousing, analyzing and mining system for identifying transcriptional regulatory sites in human genome 2004-01-01

Thesis

序號
No.		 標題
Title		 著作日期
Date
1 運用宏觀基因體分析平台建立人體菌相圖譜及細菌與疾病之風險評估模型 2013
2 細菌辨識與抗藥性基因偵測之整合性平台建置 2013
3 MirTS: 運用基因演算法與支持向量機來辨認 miRNA 和其目標基因的工具 2013
4 探討人類可轉錄假基因的調控及功能分析
 2012
5 抑制多基因表現之微核醣核酸整合性設計平台 2012
6 功能醫學雲端知識庫及個人化檢測報告解析系統 2012
7 系統化重建人類基因體中微小核醣核酸的調控網路 2011
8 利用系統生物學的方法研究人類如何透過微小核醣核酸和剪接因子之交亙作用以調控核醣核酸的選擇性剪接 2011
9 全面性基因異常檢測的整合性平台之建置 2011
10 個人化基因體整合分析系統之建置 2011
11 研究microRNA於人類卵巢癌的角色 2011
12 環單磷酸腺苷受體蛋白相依非編碼小片段核醣核酸在大腸桿菌中的網路建構
 2010
13 分析微小核醣核酸與目標基因間的作用關係及尋找標靶基因的應用
 2010
14 利用次世代定序技術系統化分析微小非編碼核醣核酸
 2010
15 My Snippi*E: 依據使用者個人SNP Profile提供疾病相關的環境因子資訊的個人化保健系統，以氣喘做為開端 2010
16 應用跨研究之單核苷酸多態性標記子以建立整合性遺傳風險預測模型 2010
17 探討關於攝護腺癌、乳癌、肺癌及大腸癌的單一核苷酸多型性標記在不同種族中的作用 2010
18 針對癌症研究中的高通量資料建立整合性分析平台 2010
19 以系統化方法辨識出能用於標靶藥物輸送的癌症專一性細胞膜受體
 2009
20 建立基因體計畫的計算流程:序列重組、基因註解與重建代謝路徑
 2009
21 A systematic method to implement a plant secondary metabolism in microbes: synthetically produce resveratrol in Escherichia coli as a case study
 2008
22 以計算方法探討抗氧化能力在補陽類中藥的補益機轉中之角色
 2008
23 大腸桿菌在無氧環境下利用甘油生產酒精的模擬與分析
 2008
24 分析腫瘤細胞中微小核醣核酸的調控機制
 2008
25 NUMT(細胞核基因的粒線體假基因) 整合性網站建置 2007
26 利用計算方法識別蛋白質之乙醯基化位置
 2007
27 在人類基因體中辨識微小核甘酸轉譯啟始位置
 2007
28 辨識人類微小核甘酸標的基因之系統化方法
 2007
29 蛋白激酶與受質磷酸化網路之建構
 2007
30 利用時間序列之微陣列基因表現資料來比較人類和老鼠在心臟胚胎發育的關係
 2006
31 基於人類與小鼠微陣列基因表現圖譜識別功能性基因群
 2006
32 自艾菲矩陣公司表現序列晶片計算信息核糖核酸同型體的表現量的新方法
 2006
33 miRTar: a fast and efficient microRNA target prediction web server
 2005
34 哺乳類基因啟動區的調控因子整合性分析系統
 2005
35 電腦化預測宿主微小核醣核酸在病毒基因組的靶位點以及預測病毒微小核醣核酸
 2005
36 建置人類核醣核酸編輯點資料庫
 2005
37 用計算方法識別哺乳類動物的基因轉錄啟始點
 2005
生物科技學院