Chen, Yu-Ju

Chen, Yu-Ju (陳玉如)

Tel: 886-2-27898660
Fax: 886-2-27831237

  • Director(2013~)
  • Deputy Director(2011-2013)
  • Research Fellow (2010-)
  • Associate Research Fellow (2005-2010)
  • Adjunt Professor, National Taiwan University (2007-)
  • Adjunt Professor, National Chia- Yi University (2007-)
  • Adjunct Research Fellow, Genomic Research Center (2004-Present)
  • Assistant Research Fellow (1999-2005)
  • Postdoctoral Fellow, National Tsing Hua University (1998-1999)
  • Postdoctoral Fellow, Ames Laboratory, U.S.A(1999)
  • Ph.D., Iowa State University (1997)
  • BS, National Taiwan University (1992)
  • President, Taiwan Proteomics Society (2009-)
  • Editorial Board Member, European Journal of Mass Spectrometry (2008-)
  • Wu Ta-you Memorial Award, National Science Council, Taiwan (2008)
  • Junior Researcher Award Research Investigators, Academia Sinica (2008)
  • Distinguished Young Chemists Award, Federation of Asian Chemical Societies (2007)
  • Outstanding Young Investigator Award, the Chinese Chemical Society (2006)
  • Award for Outstanding Young Scholar, Shui-Mu Foundation of Chemistry(2012)
  • Outstanding Research Award from the National Science Council.(2012)

Proteomics and Mass Spectrometry

圖示Research Interests

Advanced bioinformatics-assisted mass spectrometry methods for comprehensive signatures of membrane sub-proteome and its downstream phosphoproteome and nitrosylproteome associated with disease.
Surface functionalized nanoprobe-based affinity mass spectrometry for multiplexed quantitation of disease-associated protein markers, discovery of post-translational modification in disease and epitope mapping for drug-interacting protein.

圖示 Selected Publications
  1. Tsai, C.-F.; Wang, Y.-T.; Yen, H.-Y.; Tsou, C.-C.; Ku, W.-C.; Lin, P.-Y.; Chen, H.-Y.; Nesvizhskii, A.; Ishihama, Y.; Chen, Y.-J. Large-scale determination of absolute phosphorylation stoichiometries in human cells by motif-targeting quantitative proteomics. Nat. Commun. 2015, 6, 6622.
  2. Wang, W.-L.; Huang, H.-C.; Kao, S.-H.; Hsu, Y.-C.; Wang, Y.-T.; Li, K.-C.; Chen, Y.-J.; Yu, S.-L.; Wang, S.-P.; Hsiao, T.-H.; Yang, P.-C.; Hong, T.-M. Slug is temporally regulated by cyclin E in cell cycle and controls genome stability. Oncogene 2014, 1-10. Oncogene advance online publication, doi: 10.1038/onc.2014.58, 1–10
  3. Kao, S.-H.; Wang, W.-L.; Chen, C.-Y.; Chang, Y.-L.; Wu, Y.-Y.; Wang, Y.-T.; Wang, S.-P.; Nesvizhskii, AI; Chen, Y.-J.; Hong, T.-M.; Yang, P.-C. GSK3β controls epithelial–mesenchymal transition and tumor metastasis by CHIP-mediated degradation of Slug. Oncogene 2013, 1-11, doi:10.1038/onc.2013.279
  4. Huang, T.-K.; Han, C.-L.; Lin, S.-I; Chen, Y.-J.; Tsai, Y.-C.; Chen, Y.-R.; Chen, J.-W.; Lin, W.-Y.; Chen, P.-M.; Liu, T.-Y.; Chen, Y.-S.; Sun, C.-M.; Chiou, T.-J. Identification of Downstream Components of Ubiquitin-Conjugating Enzyme PHOSPHATE2 by Quantitative Membrane Proteomics in Arabidopsis Roots. The Plant Cell 2013, 25, 4044.
  5. Chang, Y.-W.; Chang, Y.-T.; Wang, Q.; Lin, J. J.-C.; Chen, Y.-J.; Chen, C.-C. Quantitative Phosphoproteomic Study of Pressure-Overloaded Mouse Heart Reveals Dynamin-Related Protein 1 as A Modulator of Cardiac Hypertrophy. Mol Cell Proteomics 2013, 12, 3094.
  6. Lu, Y.-W.; Chien, C.-W.; Lin, P.-C.; Huang, L.-D.; Chen, C.-Y.; Wu, S.-W.; Han, C.-L.; Khoo, K.-H.; Lin, C.-C.; Chen, Y.-J. BAD-Lectins: Boronic Acid-Decorated Lectins with Enhanced Binding Affinity for the Selective Enrichment of Glycoproteins. Anal. Chem. 2013, 85, 8268.
  7. Lin, P.-C.; Yu, C.-C.; Wu, H.-T.; Lu, Y.-W.; Han, C.-L.; Su, A.-K.; Chen, Y.-J.; Lin, C.-C. A Chemically Functionalized Magnetic Nanoplatform for Rapid and Specific Biomolecular Recognition and Separation. Biomacromolecules 2013, 14, 160.
  8. Chen, L.-C.; Liu, M.-Y.; Hsiao, Y.-C.; Choong, W.-K.; Wu, H.-Y.; Hsu, W.-L.; Liao, P.-C.; Sung, T.-Y.; Tsai, S.-F.; Yu, J.-S.; Chen, Y.-J. Decoding the Disease-Associated Proteins Encoded In the Human Chromosome 4. J. Proteome Res. 2012, 12, 33.
  9. Lee, T.-Y.; Chen, Y.-J.; Lu, C.-T.; Ching, W.-C.; Teng, Y.-C.; Huang, H.-D.; Chen, Y.-J. dbSNO: a Database of Cysteine S-nitrosylation. Bioinformatics 2012, 28, 2293.
  10. Han, C.-L.; Chen, J.-S.; Chan, E.-C.; Wu, C.-P.; Yu, K.-H.; Chen, K.-T.; Tsou, C.-C.; Tsai, C.-F.; Chien,C.-W.; Kuo, Y.-B.; Lin, P.-Y.; Yu, J.-S.; Hsueh, C.; Chen, M.-C.; Chan, C.-C.; Chang, Y.-S.; Chen, Y.-J. An Informatics-assisted Label-free Approach for Personalized Tissue Membrane Proteomics: Case Study on Colorectal Cancer.Mol. Cell. Proteomics 2011, 10, 1. (Selected as top 2% of published articles in biology and medicine by Faculty of 1000).
  11. Wu, H.-T.; Hsu, C.-C.; Tsai, C.-F.; Lin, P.-C.; Lin, C.-C.; Chen, Y.-J. Nanoprobe-based Immobilized Metal Affinity Chromatography for Sensitive and Complementary Enrichment of Multiply Phosphorylated Peptides. Proteomics 2011, 11, 2639.
  12. Tsou, C.-C.; Tasi, C.-F.; Tsui, Y.-H.; Sudhir, P.-R.; Wang, Y.-T.; Chen, Y.-J.; Chen, J.-Y.; Sung, T.-Y.; Hsu, W.-L. IDEAL-Q: An automated tool for label-free quantitation analysis using an efficient peptide alignment approach and spectral data validation. Mol. Cell. Proteomics 2010, 9, 131..
  13. Wang, Y.-T.; Tsai, C.-F.; Hong, T.-C.; Tsou, C.-C.; Lin, P.-Y.; Pan, S.-H.; Hong, T.-M.; Yang, P.-C.; Sung, T.-Y.; Hsu, W.-L.; Chen, Y.-J. An informatics-assisted label-free quantitation strategy that depicts phosphoproteomic profiles in lung cancer cell invasion. J. Proteome Res. 2010, 9, 5882.
  14. Lin, P.-C.; Chen, S.-H.; Wang, K.-Y.; Chen, M.-L.; Adak, A. K.; Hwu, J.-R. R.; Chen, Y.-J.; Lin, C.-C. Fabrication of Oriented Antibody-Conjugated Magnetic Nanoprobes and Their Immunoaffinity Application. Anal. Chem. 2009, 81, 8774.
  15. Chen, Yi.-Ju.; Ku, W.-C.; Feng, L.-T.; Tsai, M.-L.; Hsieh, C.-H.; Hsu, W.-H.; Liaw, W.-F.; Hung, C.-H.; Chen, Yu-Ju Nitric Oxide Physiological Responses and Delivery Mechanisms Probed by Water-soluble Roussin’s Red Ester and {Fe(NO)2}10 DNIC. J. Am. Chem. Soc. 2008, 130, 10929.
  16. Han, C.-L.; Chien, C.-W.; Chen, W.-C.; Chen,Y.-R.; Wu, C.-P.; Li, H.; Chen, Y.-J. A Multiplexed Quantitative Strategy for Membrane Proteomics: Opportunities for Mining Therapeutic Targets for Autosomal-Dominant Polycystic Kidney Disease. Mol. Cell. Proteomics. 2008, 7, 1983. (Selected by “Faculty of 1000 Biology” in 2009)

Update: 2015-04-13

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