Research Topics
Genomes and GenesSpecies | Hsueh Fen JuanSummaryAffiliation: National Taiwan University Country: Taiwan Publications
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Detail Information
Publications
Dynamic functional modules in co-expressed protein interaction networks of dilated cardiomyopathyChen Ching Lin
Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang Ming University, Taipei, Taiwan
BMC Syst Biol 4:138. 2010..Although previous studies have identified putative biomarkers or therapeutic targets for heart failure, the underlying molecular mechanism of dilated cardiomyopathy remains unclear...- A new application of microwave technology to proteomicsHsueh Fen Juan
Institute of Molecular and Cellular Biology, National Taiwan University, Taipei
Proteomics 5:840-2. 2005..This new application of microwave technology to protein identification will be an important advancement in biotechnology and proteome research... - TCMGeneDIT: a database for associated traditional Chinese medicine, gene and disease information using text miningYu Ching Fang
Institute of Molecular and Cellular Biology, National Taiwan University, Taipei, Taiwan
BMC Complement Altern Med 8:58. 2008..As available TCM data continue to accumulate rapidly, an urgent need for exploring these resources systematically is imperative, so as to effectively utilize the large volume of literature... - Proteomics analysis of a novel compound: cyclic RGD in breast carcinoma cell line MCF-7Hsueh Fen Juan
Department of Life Science, National Taiwan University, No 1 Sec 4 Roosevelt Road, Taipei, 106 Taiwan
Proteomics 6:2991-3000. 2006..In summary, these results provide a molecular explanation for the properties of cRGD in breast cancer cells and present a valuable in-depth description of their possible impact on breast cancer therapy... - An apoptosis-related gene network induced by novel compound-cRGD in human breast cancer cellsTsui Chin Huang
Institute of Molecular and Cellular Biology, National Taiwan University, No 1 Section 4 Roosevelt Road, Taipei, 106 Taiwan
FEBS Lett 581:3517-22. 2007..This study provides a molecular explanation of cRGD treatment in breast cancer cells and set forth a constructive far-reaching impact on breast cancer therapy... - Integrative network analysis reveals active microRNAs and their functions in gastric cancerChien Wei Tseng
Institute of Molecular and Cellular Biology and Department of Life Science, National Taiwan University, Taipei 106, Taiwan
BMC Syst Biol 5:99. 2011..A single miRNA can provoke a chain reaction and further affect protein interaction network (PIN). Therefore, we developed a novel integrative approach to identify the functional roles and the regulated PIN of oncomirs... - Insulin-like growth factor II mRNA-binding protein 3 expression predicts unfavorable prognosis in patients with neuroblastomaSzu Ta Chen
Department of Pediatrics, National Taiwan University Hospital and National Taiwan University College of Medicine, Taipei, Taiwan
Cancer Sci 102:2191-8. 2011..In summary, high expression of IMP3 in NB might contribute to the undifferentiated phenotype and invasive behaviors, leading to a poor prognosis. Determining IMP3 expression in NB could help to improve a personalized therapy... - Silencing of miR-124 induces neuroblastoma SK-N-SH cell differentiation, cell cycle arrest and apoptosis through promoting AHRTsui Chin Huang
Department of Life Science, National Taiwan University, Taipei, Taiwan
FEBS Lett 585:3582-6. 2011..We validate that miR-124 may suppress the expression of AHR by targeting its 3'-UTR. These results suggest that miR-124 could serve as a potential therapeutic target of neuroblastoma... - Lipopolysaccharide-stimulated responses in rat aortic endothelial cells by a systems biology approachHsiang Wen Tseng
Department and Institute of Pharmacology, National Yang Ming University, Taipei, Taiwan
Proteomics 6:5915-28. 2006..Moreover, the expressions of altered genes, proteins, and their involvement in the hypothetical signaling pathway can provide further understanding of inflammation associated responses in ECs... - Characterization of microRNA-regulated protein-protein interaction networkChun Wei Hsu
Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang Ming University, Taipei, Taiwan
Proteomics 8:1975-9. 2008..Our findings shed light on how miRNA may regulate the protein interaction network... - Bioinformatics: microarray data clustering and functional classificationHsueh Fen Juan
Department of Life Science, Institute of Molecular and Cellular Biology, National Taiwan University, Taipei
Methods Mol Biol 382:405-16. 2007..In this chapter, in terms of how to use Cluster 3.0 and Java Treeview for microarray data clustering, and BGSSJ for functional classification are explained in detail... - Incremental generation of summarized clustering hierarchy for protein family analysisChien yu Chen
Department of Computer Science and Information Engineering, National Taiwan University, Taipei 106, Taiwan, ROC
Bioinformatics 20:2586-96. 2004.... - MeInfoText: associated gene methylation and cancer information from text miningYu Ching Fang
Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan
BMC Bioinformatics 9:22. 2008..To facilitate epigenetics research, we have developed a database called MeInfoText to provide gene methylation information from text mining... - Predicting essential genes based on network and sequence analysisYih Chii Hwang
Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang Ming University, Taipei, 112, Taiwan
Mol Biosyst 5:1672-8. 2009..Computational prediction of essential genes circumvents expensive and difficult experimental screens and will help antimicrobial drug development... - Coregulation of transcription factors and microRNAs in human transcriptional regulatory networkCho Yi Chen
Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang Ming University, Taipei, Taiwan
BMC Bioinformatics 12:S41. 2011..Recent studies have suggested that miRNAs and transcription factors are primary metazoan gene regulators; however, the crosstalk between them still remains unclear... - Identification of 14-3-3? in human gastric cancer cells and its potency as a diagnostic and prognostic biomarkerChien Wei Tseng
Department of Life Science, Institute of Molecular and Cellular Biology, National Taiwan University, Taipei, Taiwan
Proteomics 11:2423-39. 2011..Overall, these results highlight the significance of 14-3-3? in gastric cancer cell progression and suggest that it has the potential to be used as a diagnostic and prognostic biomarker in gastric cancer... - Targeting therapy for breast carcinoma by ATP synthase inhibitor aurovertin BTsui Chin Huang
Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan
J Proteome Res 7:1433-44. 2008..This study showed aurovertin B can be used as an antitumorigenic agent and may be exploited in cancer chemotherapy... - Breast tumor microenvironment: proteomics highlights the treatments targeting secretomeShui Tein Chen
Institute of Biological Chemistry and the Genomics Research Center, Academia Sinica, Taipei, Taiwan
J Proteome Res 7:1379-87. 2008..Such in vivo profiling of breast cancer secretomes may facilitate the development of novel drugs specifically targeting secretome... - Comparative analysis of differentially expressed genes in normal and white spot syndrome virus infected Penaeus monodonJiann Horng Leu
Institute of Zoology, National Taiwan University, Taipei, Taiwan
BMC Genomics 8:120. 2007..In this study, we used an expressed sequence tag (EST) approach to observe global gene expression changes in white spot syndrome virus (WSSV)-infected postlarvae of Penaeus monodon... - Essential core of protein-protein interaction network in Escherichia coliChen Ching Lin
Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang Ming University, Taipei 112, Taiwan
J Proteome Res 8:1925-31. 2009..Our results indicated that the observed structure of essential cores might exist in higher organisms and play important roles in their respective protein networks... - Ganoderma lucidum polysaccharides in human monocytic leukemia cells: from gene expression to network constructionKun Chieh Cheng
Department of Life Science, National Taiwan University, Taipei 106, Taiwan
BMC Genomics 8:411. 2007..This gave rise to our investigation on how F3 stimulates immuno-modulating or anti-tumor effects in human leukemia THP-1 cells... - Prediction of human miRNAs using tissue-selective motifs in 3' UTRsYao Ming Chang
Institute of Information Science, Innovation Research Center, and Biodiversity Research Center and Genomics Research Center, Academia Sinica, Nankang, Taipei, Taiwan
Proc Natl Acad Sci U S A 105:17061-6. 2008.... - RINGdb: an integrated database for G protein-coupled receptors and regulators of G protein signalingYu Ching Fang
Department of Life Science, National Central University, Chung Li 320, Taiwan
BMC Genomics 7:317. 2006..To facilitate clinical and pharmacological research, we have developed a novel integrated biological database called RINGdb to provide comprehensive and organized RGS protein and GPCR information... - Cytotoxicity and proteomics analyses of OSU03013 in lung cancerYi Hung Tan
Department of Life Science, National Taiwan Normal University, Taipei, Taiwan
Clin Cancer Res 14:1823-30. 2008..Most lung cancer patients have some resistance to and suffer from side effects of conventional chemotherapy. Thus, identification of a novel anticancer drug with better target selectivity for lung cancer treatment is urgently needed... - Identification of GRP75 as an independent favorable prognostic marker of neuroblastoma by a proteomics analysisWen Ming Hsu
Department of Surgery, National Taiwan University Hospital and National Taiwan University College of Medicine, 7 Chung Shan South Road, Taipei, Taiwan
Clin Cancer Res 14:6237-45. 2008..Because the tumor behavior of NB is closely associated with the histologic state of differentiation, we thus aimed to identify novel differentiation-associated markers of NB with prognostic implication... - Comparison and identification of estrogen-receptor related gene expression profiles in breast cancer of different ethnic originsHsiao Wei Chen
Department of Life Science, National Taiwan University, Taipei 106, Taiwan
Breast Cancer (Auckl) 1:35-49. 2008..This study provides a global and feasible approach to study population-unique SNPs in breast cancer of different ethnic origins... - Identification of tumor-associated plasma biomarkers using proteomic techniques: from mouse to humanHsueh-Fen Juan
Department of Chemical Engineering and Institute of Biotechnology, National Taipei University of Technology, Taipei, Taiwan
Proteomics 4:2766-75. 2004..In addition, our findings demonstrate that a panel of APPs might serve as screening biomarkers for early cancer detection... - Quantitative proteomic and genomic profiling reveals metastasis-related protein expression patterns in gastric cancer cellsYet-Ran Chen
Institute of Chemistry and Genomic Research Center, Academia Sinica, Taipei, Taiwan
J Proteome Res 5:2727-42. 2006.... - GeneNetwork: an interactive tool for reconstruction of genetic networks using microarray dataChia-Chin Wu
Institute of Biological Chemistry and Genomics Research Center, Academia Sinica, Taipei, Taiwan
Bioinformatics 20:3691-3. 2004..AVAILABILITY: Download from http://genenetwork.sbl.bc.sinica.edu.tw/. SUPPLEMENTARY INFORMATION: Supplement documentation of algorithms for the four approaches is downloadable at the above location... - Biomic study of human myeloid leukemia cells differentiation to macrophages using DNA array, proteomic, and bioinformatic analytical methodsHsueh-Fen Juan
Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan
Electrophoresis 23:2490-504. 2002..This powerful holistic biomic approach using cDNA microarray, proteomics coupled to bioinformatics can provide in-depth information on the impact and importance of the regulated genes and proteins for HL-60 differentiation... - ATP13A2 variability in Taiwanese Parkinson's diseaseChiung Mei Chen
Department of Neurology, Chang Gung Memorial Hospital, Chang Gung University College of Medicine, Taipei, Taiwan
Am J Med Genet B Neuropsychiatr Genet 156:720-9. 2011..We therefore hypothesize that rare variants of ATP13A2 may contribute to PD susceptibility in Taiwan. The role played by ATP13A2 variants in PD remains to be clarified... - Revealing the functions of the transketolase enzyme isoforms in Rhodopseudomonas palustris using a systems biology approachChia Wei Hu
Institute of Molecular and Cellular Biology, National Taiwan University, Taipei, Taiwan
PLoS ONE 6:e28329. 2011..Transketolase is a key enzyme involved in the CBB cycle. Here, we reveal the functions of transketolase isoforms I and II in R. palustris using a systems biology approach... - A proteomics study of the mung bean epicotyl regulated by brassinosteroids under conditions of chilling stressBin Huang
Institute of Plant Biology, National Taiwan University, Taipei, Taiwan
Cell Mol Biol Lett 11:264-78. 2006..This is the first proteome established for the mung bean species. The regulatory relationship between brassinosteroids and chilling conditions was investigated, and possible mechanisms are discussed herein... - ProteMiner-SSM: a web server for efficient analysis of similar protein tertiary substructuresDarby Tien-Hau Chang
Department of Computer Science and Information Engineering, National Taiwan University, Taipei, Taiwan, ROC
Nucleic Acids Res 32:W76-82. 2004..15 to 9.37 times. The ProteMiner-SSM web server can be found at http://proteminer.csie.ntu.edu.tw/. There is a mirror site at http://p4.sbl.bc.sinica.edu.tw/proteminer/... - An agent-based system to discover protein-protein interactions, identify protein complexes and proteins with multiple peptide mass fingerprintsTzong-Yi Lee
Department of Biological Science and Technology and Institute of Bioinformatics, National Chiao-Tung University, Taiwan, Republic of China
J Comput Chem 27:1020-32. 2006..The agent-based system is now available on the Web at http://dbms104.csie.ncu.edu.tw/ approximately protein/NEW2/... - MultiProtIdent: identifying proteins using database search and protein-protein interactionsHsien-Da Huang
Department of Biological Science and Technology and Institute of Bioinformatics, National Chiao-Tung University, Hsin-Chu 300, Taiwan
J Proteome Res 4:690-7. 2005..Experiments to identify protein complexes reveal that MultiProtIdent is highly promising. The website associated with this study is http://dbms104.csie.ncu.edu.tw/... - Immunomodulatory effect of decoy receptor 3 on the differentiation and function of bone marrow-derived dendritic cells in nonobese diabetic mice: from regulatory mechanism to clinical implicationShu Fen Wu
Graduate Institute of Life Sciences, National Defense Medical Center, Taipei, Taiwan 114
J Leukoc Biol 75:293-306. 2004.... - Bioinformatics, functional genomics, and proteomics study of Bacillus spSupachok Sinchaikul
Institute of Biological Chemistry, Academia Sinica, 128 Yen Chiu Yuan Rd, Sec II, Nankang, Taipei 11529, Taiwan
J Chromatogr B Analyt Technol Biomed Life Sci 771:261-87. 2002..Moreover, the secreted proteins from Bacillus sp. are interesting and widely used in many applications especially biomedical applications that are the highly advantages for their potential therapeutic values...