Publications

Results 1-31 of 31 (Search time: 0.004 seconds).

Issue DateTitleAuthor(s)RelationscopusWOSFulltext/Archive link
12022Phosphoproteomics reveals the role of constitutive KAP1 phosphorylation by B-cell receptor signaling in chronic lymphocytic leukemiaWu, Jung-Lin; Wu, Hsin-Yi; Wu, Shang-Ju; Tsai, Ho-Yang; Weng, Shao-Hsing; Lin, Kuen-Tyng; Lin, Liang-In; Yao, Chi-Yuan; Zamanova, Margarita; Lee, Yi-Yuan; Angata, Takashi ; Tien, Hwei-Fang; Chen, Yu-Ju ; Lin, Kuo-I Molecular Cancer Research 20(8), 1222-1232
22022Molecular basis and role of Siglec-7 ligand expression on chronic lymphocytic leukemia B cellsChang, L.-Y.; Liang, S.-Y.; Lu, S.-C.; Tseng, H.-C.; Tsai, H.-Y.; Tang, C.-J.; Sugata, M.; Chen, Y.-J.; Chen, Y. -J. ; Wu, S.-J.; Lin, K.-I ; Khoo, K.-H. ; Angata, T. Frontiers in Immunology 13, 840388
32022Streamlined single-cell proteomics by an integrated microfluidic chip and data-independent acquisition mass spectrometryGebreyesus, Sofani Tafesse; Siyal, Asad Ali; Kitata, Reta Birhanu; Chen, Eric Sheng-Wen; Enkhbayar, Bayarmaa; Angata, Takashi ; Lin, Kuo-I ; Chen, Yu-Ju ; Tu, Hsiung-LinNature Communications 13, 37
42021Sample Size-Comparable Spectral Library Enhances Data-Independent Acquisition-Based Proteome Coverage of Low-Input CellsSiyal, Asad Ali; Chen, Eric Sheng-Wen; Chan, Hsin-Ju; Kitata, Reta Birhanu; Yang, Jhih-Ci; Tu, Hsiung-Lin; Chen, Yu-Ju Analytical Chemistry 93(51), 17003-17011
52021ZIC-cHILIC-Based StageTip for Simultaneous Glycopeptide Enrichment and Fractionation toward Large-Scale N-SialoglycoproteomicsYi-Ju Chen; Ta-Chi Yen; Yu-Hsien Lin; Yan-Lin Chen; Kay-Hooi Khoo ; Yu-Ju Chen Analytical Chemistry 93(48), 15931-15940
62021ZIC-cHILIC Functionalized Magnetic Nanoparticle for Rapid and Sensitive Glycopeptide Enrichment from <1 µL SerumTiara Pradita; Yi-Ju Chen; Elias Gizaw Mernie; Sharine Noelle Bendulo; Yu-Ju Chen Nanomaterials 11(9), 2159
72021Nanoprobe-Based Mass Spectrometry and Fourier Transform Infrared Spectroscopy for Rapid Phospholipid ProfilingElias Gizaw Mernie; Mei-Chun Tseng; Wen-Ti Wu; Tzu-Ming Liu; Yu-Ju Chen Journal of the Chinese Chemical Society 69(1), 94-106
82021A data-independent acquisition-based global phosphoproteomics system enables deep profilingKitata, Reta Birhanu; Choong, Wai-Kok; Tsai, Chia-Feng; Lin, Pei-Yi; Chen, Bo-Shiun; Chang, Yun-Chien; Nesvizhskii, Alexey I.; Sung, Ting-Yi; Chen, Yu-Ju Nature Communications 12, 2539
92021Integrating site-specific peptide reporters and targeted mass spectrometry enables rapid substrate-specific kinase assay at the nanogram cell levelReyes Aaron James F.; Kitata Reta Birhanu; dela Rosa Mira Anne C.; Wang Yi-Ting; Lin Pei-Yi; Yang Pan-Chyr; Friedler Assaf; Yitzchaik Shlomo; Chen Yu-Ju Analytica Chimica Acta 1155, 338341
102021An Enzyme-Mediated Aza-Michael Addition Is Involved in the Biosynthesis of an Imidazoyl Hybrid Product of Conidiogenone BHewage, Ranuka T.; Huang, Rou-Jie; Lai, Shu-Jung; Lien, Ya-Chu; Weng, Shao-Hsing; Li, Dehai; Chen, Yu-Ju ; Wu, Shih-Hsiung ; Chein, Rong-Jie ; Lin, Hsiao-Ching Organic Letters 23(5), 1904-1909
112020Standardization and harmonization of distributed multi-center proteotype analysis supporting precision medicine studiesXuan, Yue; Bateman, Nicholas W.; Gallien, Sebastien; Goetze, Sandra; Zhou, Yue; Navarro, Pedro; Hu, Mo; Parikh, Niyati; Hood, Brian L.; Conrads, Kelly A.; Loosse, Christina; Kitata, Reta Birhanu; Piersma, Sander R.; Chiasserini, Davide; Zhu, Hongwen; Hou, Guixue; Tahir, Muhammad; Macklin, Andrew; Khoo, Amanda; Sun, Xiuxuan; Crossett, Ben; Sickmann, Albert; Chen, Yu-Ju ; Jimenez, Connie R.; Zhou, Hu; Liu, Siqi; Larsen, Martin R.; Kislinger, Thomas; Chen, Zhinan; Parker, Benjamin L.; Cordwell, Stuart J.; Wollscheid, Bernd; Conrads, Thomas P.Nature Communications 11, 5248
122020Proteogenomics of Non-smoking Lung Cancer in East Asia Delineates Molecular Signatures of Pathogenesis and ProgressionYi-Ju Chen; Theodoros I Roumeliotis; Ya-Hsuan Chang; Ching-Tai Chen; Chia-Li Han; Miao-Hsia Lin; Huei-Wen Chen; Gee-Chen Chang; Yih-Leong Chang; Chen-Tu Wu; Mong-Wei Lin; Min-Shu Hsieh; Yu-Tai Wang; Yet-Ran Chen; Inge Jonassen; Fatemeh Zamanzad Ghavidel; Ze-Shiang Lin; Kuen-Tyng Lin; Ching-Wen Chen; Pei-Yuan Sheu; Chen-Ting Hung; Ke-Chieh Huang; Hao-Chin Yang; Pei-Yi Lin; Ta-Chi Yen; Yi-Wei Lin; Jen-Hung Wang; Lovely Raghav; Chien-Yu Lin; Yan-Si Chen; Pei-Shan Wu; Chi-Ting Lai; Shao-Hsing Weng; Kang-Yi Su; Wei-Hung Chang; Pang-Yan Tsai; Ana I Robles; Henry Rodriguez; Yi-Jing Hsiao; Wen-Hsin Chang; Ting-Yi Sung ; Jin-Shing Chen; Sung-Liang Yu; Jyoti S Choudhary; Hsuan-Yu Chen; Pan-Chyr Yang; Yu-Ju Chen Cell 182(1), 226-244.e17
132020Proteogenomics of Non-smoking Lung Cancer in East Asia Delineates Molecular Signatures of Pathogenesis and ProgressionY. J. Chen ; T. I Roumeliotis; Y. H. Chang; C. T. Chen; C. L. Han; M. H. Lin; H. W. Chen; G. C. Chang; Y. L. Chang; C. T. Wu; M. W. Lin; M. S. Hsieh; Y. T. Wang; Y. R. Chen ; I. Jonassen; F. Z. Ghavidel; Z. S. Lin; K. T. Lin; C. W. Chen; P. Y. Sheu; C. T. Hung; K. C. Huang; H. C. Yang; P. Y. Lin; T. C. Yen; Y. W. Lin; J. H. Wang; L. Raghav; C. Y. Lin; Y. S. Chen; P. S. Wu; C. T. Lai; S. H. Weng; K. Y. Su; W. H. Chang; Tsai; P. Y. Tsai; A. I. Robles; H. Rodriguez; Y. J. Hsiao; W. H. Chang; T. Y. Sung ; J. S. Chen; S. L. Yu; J. S. Choudhary; H. Y. Chen ; P. C. Yang; Y. J. Chen CELL 182(1), 226-244.e17
142020Palmitoyl Acyltransferase Activity of ZDHHC13 Regulates Skin Barrier Development Partly by Controlling PADi3 and TGM1 Protein StabilityLi-Ying Chen; Kuo-Ray Lin; Yi-Ju Chen; Yun-Jung Chiang; Kun-Chin Ho; Li-Fen Shen; I-Wen Song; Kai-Ming Liu; Hsin-Fang Yang-Yen; Yu-Ju Chen ; Yuan-Tsong Chen; Fu-Tong Liu ; Jeffrey JY Yen Journal of Investigative Dermatology 140(5), 959-970.e3
152020Transcriptomic and Proteomic Profiling of Human Mesenchymal Stem Cell Derived from Umbilical Cord in the Study of Preterm BirthChien, Chih‐Wei; Lo, Yu‐Shu; Wu, Hsin‐Yi; Hsuan, Yogi; Lin, Chi‐Kang; Chen, Yu-Ju ; Lin, Willie; Han, Chia‐LiPROTEOMICS – Clinical Applications 14(1), 1900024
162020Identification of Conomarphin Variants in the Conus eburneus Venom and the Effect of Sequence and PTM Variations on Conomarphin ConformationsItang, Corazon Ericka Mae M.; Gaza, Jokent T.; Masacupan, Dan Jethro M.; Batoctoy, Dessa Camille R.; Chen, Yu-Ju ; Nellas, Ricky B.; Yu, Eizadora T.Marine Drugs 18(10), 503
172019Nanomatrix-Assisted Laser Desorption-Ionization Mass Spectrometry for Oligosaccharides ProfilingElias Gizaw Mernie; Leta Deressa Tolesa; Ming-Jer Lee; Mei-Chun Tseng ; Yu-Ju Chen 
182019Direct Oligosaccharide Profiling using Thin-Layer Chromatography Coupled with Ionic Liquid-Stabilized Nanomatri-Assisted Laser Desorption-Ionization Mass SpectrometryElias Gizaw Mernie; Leta Deressa Tolesa; Ming-Jer Lee; Mei-Chun Tseng ; Yu-Ju Chen 
192019Fluorescence “Turn-on” Lectin Sensors Fabricated by Ligand-Assisted Labeling Probes for Detecting Protein–Glycoprotein InteractionsLi, Pei-Jhen; Anwar, Mohammad Tarigue; Fan, Chen-Yo; Juang, Duane S.; Lin, Hsin-Yi; Chang, Tsung-Che; Kawade, Sachin Kisan; Chen, Hsiang-Jung; Chen, Yu-Ju ; Tan, Kui-Thong; Lin, Chun-ChengBiomacromolecules 21(2), 815-824
202018Evaluating the Possibility of Detecting Variants in Shotgun Proteomics via LeTE-Fusion Analysis PipelineTung-Shing Mamie Lih; Wai-Kok Choong; Yu-Ju Chen ; Ting-Yi Sung Journal of Proteome Research 17(9), 2937-2952
212017iTop-Q: an Intelligent Tool for Top-down Proteomics Quantitation Using DYAMOND AlgorithmHui-Yin Chang; Ching-Tai Chen; Chu-Ling Ko; Yi-Ju Chen; Yu-Ju Chen ; Wen-Lian Hsu ; Chiun-Gung Juo; Ting-Yi Sung Analytical Chemistry 89(24), 13128-13136
222017Proteome analysis of human embryonic stem cells organellesFaezeh Shekari; Hossein Nezari; Mehran Rezaei Larijani; Chia-Li Han; Hossein Baharvand; Yu-Ju Chen ; Ghasem Hosseini SalekdehJournal of Proteomics 162, 108-118
232017Exploring the expression bar code of SAA variants for gastric cancer detectionDeng-Chyang Wu; Kai-Yi Wang; Sophie S.W. Wang; Ching-Min Huang; Yi-Wei Lee; Michael Isaac Chen; Szu-An Chuang; Shu-Hua Chen; Ying-Wei Lu; Chun-Cheng Lin; Ka-Wo Lee; Wen-Hung Hsu; Wu Kun-Pin; Yu-Ju Chen PROTEOMICS 17(11), 1600356
242017Role of S-Palmitoylation by ZDHHC13 in Mitochondrial function and Metabolism in LiverLi-Fen Shen; Yi-Ju Chen; Kai-Ming Liu; Amir N. Saleem Haddad; I-Wen Song; Hsiao-Yuh Roan; Li-Ying Chen; Jeffrey J. Y. Yen; Yu-Ju Chen ; Jer-Yuarn Wu; Yuan-Tsong ChenScientific Reports 7(1):2128
252017Identification of Potential Plasma Biomarkers for Nonalcoholic Fatty Liver Disease by Integrating Transcriptomics and Proteomics in Laying HensMeng-Tsz Tsai; Yu-Jen Chen; Ching-Yi Chen; Mong-Hsun Tsai; Chia-Li Han; Yu-Ju Chen ; Harry J Mersmann; Shih-Torng DingThe Journal of Nutrition 147(3), 293-303
262017Biomarker identification of hepatocellular carcinoma using a methodical literature mining strategyNai-Wen Chang; Hong-Jie Dai; Yung-Yu Shih; Chi-Yang Wu; Mira Anne C. Dela Rosa; Rofeamor P. Obena; Yu-Ju Chen ; Wen-Lian Hsu; Yen-Jen OyangDATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION 2017:bax082
272015Informatics View on the Challenges of Identifying Missing Proteins From Shotgun ProteomicsWai-Kok Choong; Hui-Yin Chang; Ching-Tai Chen; Chia-Feng Tsai; Wen-Lian Hsu ; Yu-Ju Chen ; Ting-Yi Sung Journal of Proteome Research 14(12), 5396-5407
282015MAGIC: An Automated N-Linked Glycoprotein Identification Tool Using a Y1-Ion Pattern Matching Algorithm and in Silico MS2 ApproachKe-Shiuan Lynn; Chen-Chun Chen; T. Mamie Lih; Cheng-Wei Cheng; Wan-Chih Su; Chun-Hao Chang; Chia-Ying Cheng; Wen-Lian Hsu ; Yu-Ju Chen ; Ting-Yi Sung Analytical Chemistry 87(4), 2466-2473
292015Glutathionylspermidine in the Modification of Protein SH Groups: The Enzymology and Its Application to Study Protein GlutathionylationJason Ching-Yao Lin; Bing-Yu Chiang; Chi-Chi Chou; Tzu-Chieh Chen; Yi-Ju Chen ; Yu-Ju Chen ; Chun-Hung Lin Molecules 20(1), 1452-1474
302014Cancer-associated fibroblasts regulate the plasticity of lung cancer stemness via paracrine signallingChen, WJ; Ho, CC; Chang, YL; Chen, HY; Lin, CA; Ling, TY; Yu, SL; Yuan, SS ; Chen, YJ ; Lin, CY; Pan, SH; Chou, HY; Chen, YJ; Chang, GC; Chu, WC; Lee, YM; Lee, JY; Lee, PJ; Li, KC; Chen, HW; Yang, PCNature communications 5, 3472
312008Immobilized Metal Affinity Chromatography Revisited: pH/acid Control toward High Selectivity in PhosphoproteomicsTsai, Chia-Feng; Wang, Yi-Ting; Chen, Yet-Ran; Lai, Chen-Yu; Lin, Pei-Yi; Pan, Kuan-Ting; Chen, Jeou-Yuan ; Khoo, Kay-Hooi ; Chen, Yu-Ju JOURNAL OF PROTEOME RESEARCH 7(9), 4058-4069