High-throughput Proteomics analysis of FFPE tissue samples facilitates tumor stratification
Yi Zhu#, Tobias Weiss#, Qiushi Zhang, Rui Sun, Bo Wang, Xiao Yi, Zhicheng Wu, Huanhuan Gao, Xue Cai, Guan Ruan, Tiansheng Zhu, Chao Xu, Sai Lou, Xiaoyan Yu, Ludovic Gillet, Peter Blattmann, Karim Saba, Christian D. Fankhauser, Michael B. Schmid, Dorothea Rutishauser, Jelena Ljubicic, Ailsa Christiansen, Christine Fritz, Niels J. Rupp, Cedric Poyet, Elisabeth Rushing, Michael Weller, Patrick Roth, Eugenia Haralambieva, Silvia Hofer, Chen Chen, Wolfram Jochum, Xiaofei Gao, Lirong Chen, Qing Zhong, Peter J. Wild*, Ruedi Aebersold*, Tiannan Guo*.
Molecular Oncology. 2019.13(11): 2305-2328.
Proteomic investigation of intra-tumor heterogeneity using network-based contextualization — A case study on prostate cancer
Goh, Wilson*#; Zhao, Yaxing#; Sue, Andrew; Guo, Tiannan; Wong, Limsoon*.
Journal of Proteomics. 2019.206: 103446.
Comparative analysis of mRNA degradation and protein degradation in 68 pairs of adjacent prostate tissue samples indicates high stability of proteins
Wenguang Shao#, Tiannan Guo#*, Nora C Toussaint, Peng Xue, Ulrich Wagner, Li Li, Konstantina Charmpi, Yi Zhu, Jianmin Wu, Maria Buljan, Rui Sun, Dorothea Rutishauser, Thomas Hermanns, Christian Daniel Fankhauser, Cedric Poyet, Jelena Ljubicic, Niels Rupp, Jan H. Rüschoff, Qing Zhong, Andreas Beyer, Jaifu Ji, Ben C. Collins, Yansheng Liu, Gunnar Rätsch, Peter J. Wild*, Ruedi Aebersold*.
Nature Communications. 2019.10(1): 2524.
In-depth Serum Proteomics Reveals Biomarkers of Psoriasis Severity and Response to Traditional Chinese Medicine
Meng Xu#, Jingwen Deng#, Kaikun Xu#, Tiansheng Zhu#, Ling Han, Yuhong Yan, Danni Yao, Hao Deng, Dan Wang, Yaoting Sun, Cheng Chang, Xiaomei Zhang, Jiayu Dai, Liang Yue, Qiushi Zhang, Xue Cai, Yi Zhu, Hu Duan, Yuan Liu, Dong Li, Yunping Zhu, Timothy R. D. J. Radstake, Deepak M.W. Balak, Danke Xu*, Tiannan Guo*, Chuanjian Lu* and Xiaobo Yu*.
Theranostics. 2019.9(9): 2475-2488.
Identification of protein abundance changes in biopsy-level hepatocellular carcinoma tissues using PCT-SWATH
Yi Zhu#, Jiang Zhu#, Cong Lu, Qiushi Zhang, Wei Xie, Ping Sun, Xiaochuan Dong, Liang Yue, Yaoting Sun, Xiao YI, Tiansheng Zhu, Guan Ruan, Ruedi Aebersold*, Shi’ang Huang*, Tiannan Guo*.
Proteomics Clinical Applications. 2019.13(1): e1700179.
Multi-region proteome analysis quantifies spatial heterogeneity of prostate tissue biomarkers
Tiannan Guo#, Li Li#, Qing Zhong#, Niels J Rupp, Konstantina Charmpi, Christie E Wong, Ulrich Wagner, Jan H Rueschoff, Wolfram Jochum, Christian Fankhauser, Karim Saba, Cedric Poyet, Peter J Wild*, Ruedi Aebersold*, Andreas Beyer*.
Life Science Alliance. 2018.1(2): e201800042.
High-Throughput Proteomic Analysis of Fresh-Frozen Biopsy Tissue Samples Using Pressure Cycling Technology Coupled with SWATH Mass Spectrometry
Yi Zhu, Tiannan Guo*.
Methods in Molecular Biology. 2018.1788: 279-287.
Towards a one-stop solution for large-scale proteomics data analysis
Yi Zhu, Tiannan Guo*.
Science China Life Sciences. 2018.61(3): 351-354.
Application of Nanosecond Laser Photolysis Protein Footprinting to Study EGFR Activation by EGF in Cells
Yi Zhu, Aida Serra, Tiannan Guo, Jung Eun Park, Qing Zhong, and Siu Kwan Sze*.
Journal of Proteome Research. 2017.16(6): 2282-2293.
A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients
Qing Zhong#, Tiannan Guo#, Markus Rechsteiner, Jan H Rüschoff, Niels Rupp, Christian Fankhauser, Karim Saba, Ashkan Mortezavi, Cédric Poyet, Thomas Hermanns, Yi Zhu, Holger Moch, Ruedi Aebersold, Peter J. Wild*.
Scientific Data. 2017.4: 170014.
Phosphatase POPX2 exhibits dual regulatory functions in cancer metastasis
Songjing Zhang, Ting Weng, Cheruba, Elsie, Tiannan Guo, Hei Chan, Siu Kwan Sze, and Cheng-Gee Koh*.
Journal of Proteome Research. 2017.16(2): 698-711.
TRIM24 is an oncogenic transcriptional activator in prostate cancer
Anna C. Groner, Laura Cato, Jonas de Tribolet-Hardy, Tiziano Bernasocchi, Hana Janouskova , Diana Melchers, René Houtman, Andrew C. B. Cato, Patrick Tschopp, Lei Gu, Andrea Corsinotti, Qing Zhong, Christian Fankhauser, Christine Fritz, Cédric Poyet, Ulrich Wagner, Tiannan Guo, Ruedi Aebersold, Levi A. Garraway, Peter J. Wild, Jean-Philippe Theurillat*, Myles Brown*.
Cancer Cell. 2016.29(6): 846-858.
Reproducible Tissue Homogenization and Protein Extraction for Quantitative Proteomics Using MicroPestle-Assisted Pressure-Cycling Technology
Shao S, Guo T, Gross V, Lazarev A, Koh CC, Gillessen S, Joerger M, Jochum W, Aebersold R*.
Journal of Proteome Research. 2016.15(6): 1821-1829.
Image-based computational quantification and visualization of genetic alterations and tumour heterogeneity
Qing Zhong#, Jan H Rüschoff#, Tiannan Guo, Maria Gabrani, Peter J Schüffler, Markus Rechsteiner, Yansheng Liu, Thomas J Fuchs, Niels J Rupp, Christian Fankhauser, Joachim M Buhmann, Sven Perner, Cédric Poyet, Miriam Blattner, Davide Soldini, Holger Moch, Mark A Rubin, Aurelia Noske, Josef Rüschoff, Michael C Haffner, Wolfram Jochum, Peter J Wild*.
Scientific Reports. 2016.6: 24146.
Quantitative proteomics signature profiling based on network contextualization
Goh WW*, Guo T, Aebersold R, Wong L.
Biology Direct. 2015.10: 71.
Minimal sample requirement for highly multiplexed protein quantification in cell lines and tissues by PCT-SWATH mass spectrometry
Shao S, Guo T, Koh CC, Gillessen S, Joerger M, Jochum W, Aebersold R*.
Proteomics. 2015.15(21): 3711-3721.
Global Metabonomic and Proteomic Analysis of Human Conjunctival Epithelial Cells (IOBA-NHC) in Response to Hyperosmotic Stress
Chen L#, Li J#, Guo T, Ghosh S, Koh SK, Tian D, Zhang L, Jia D, Beuerman RW, Aebersold R, Chan EC*, Zhou L*.
Journal of Proteome Research. 2015.14(9): 3982-3995.
Rapid mass spectrometric conversion of tissue biopsy samples into permanent quantitative digital proteome maps
Tiannan Guo#, Petri Kouvonen, Ching Chiek Koh, Ludovic C Gillet, Witold E Wolski, Hannes L Röst, George Rosenberger, Ben C Collins, Lorenz C Blum, Silke Gillessen, Markus Joerger, Wolfram Jochum, Ruedi Aebersold*.
Nature Medicine. 2015.21(4): 407–413.
The methyltransferase Ezh2 controls cell adhesion and migration through direct methylation of the extranuclear regulatory protein talin
Gunawan M#, Venkatesan N#, Loh JT#, Wong JF, Berger H, Neo WH, Li LY, La Win MK, Yau YH, Guo T, See PC, Yamazaki S3, Chin KC4, Gingras AR5, Shochat SG, Ng LG, Sze SK, Ginhoux F, Su IH*.
Nature Immunology. 2015.16(5): 505-516.
Mass spectrometry-based proteomic quest for diabetes biomarkers
Shiying Shao*, Tiannan Guo, Ruedi Aebersold*.
Biochimica et Biophysica Acta (BBA) – Proteins and Proteomics. 2015.1854(6): 519-27.
Quantitative proteomics reveals differential biologicalprocesses in healthy neonatal cord neutrophils and adultneutrophils
Jiang Zhu#, Huoming Zhang*#, Tiannan Guo, Wenying Li, Huiyu Li,YiZhu and Shi’ang Huang*
Proteomics. 2014.14(13-14): 1688-97.
A repository of assays to quantify 10,000 human proteins by SWATH-MS
Rosenberger G#, Koh CC, Guo T, Röst HL, Kouvonen P, Collins BC, Heusel M, Liu Y, Caron E, Vichalkovski A, Faini M, Schubert OT, Faridi P, Ebhardt HA, Matondo M, Lam H, Bader SL, Campbell DS, Deutsch EW, Moritz RL, Tate S, Aebersold R*.
Scientific Data. 2014.1: 140031.
LEO1 is regulated by PRL-3 and mediates its oncogenic properties in Acute Myeloid Leukemia
Chong PS#, Zhou J#, Cheong LL, Liu SC, Qian J, Guo T, Sze SK, Zeng Q, Chng WJ*.
Cancer Research. 2014.74(11): 3043-3053.
Integrative Transcriptome and Proteome Study to Identify the Signaling Network Regulated by POPX2 Phosphatase
Zhang S, Guo T, Chan H, Sze SK, Koh CG*.
Journal of Proteome Research. 2013.12(6): 2525-2536.
Multidimensional identification of tissue biomarkers of gastric cancer
Tiannan Guo, Lingling Fan, Wai Har Ng, Yi Zhu, Mengfatt Ho, Wei Keat Wan, Kiat Hon Lim, Whee Sze Ong, Sze Sing Lee, Shiang Huang, Oi Lian Kon*, and Siu Kwan Sze*.
Journal of Proteome Research. 2012.11(6): 3405-3413.
Elucidating Structural Dynamics of Integral Membrane Proteins on Native Cell Surface by Hydroxyl Radical Footprinting and Nano LC-MS/MS
Zhu Y, Guo T, Sze SK*.
Methods in Molecular Biology. 2011.790: 287-303.
Investigation of POPX2 Phosphatase Functions by Comparative Phosphoproteomic Analysis
Singh P, Gan CS, Guo T, Phang HQ, Sze SK, Koh CG*.
Proteomics. 2011.11(14): 2891-900.
Simultaneous Analysis of Proteome, Phospho- and Glycoproteome of Rat Kidney Tissue with Electrostatic Repulsion Hydrophilic Interaction Chromatography
Piliang Hao, Tiannan Guo, Siu Kwan Sze*
PloS One. 2011.6(2): e16884.
Global molecular dysfunctions in gastric cancer revealed by an integrated analysis of the phosphoproteome and transcriptome
Tiannan Guo, Sze Sing Lee, Wai Har Ng, Yi Zhu, Chee Sian Gan, Jiang Zhu, Haixia Wang, Shiang Huang, Siu Kwan Sze* and Oi Lian Kon*.
Cellular and Molecular Life Sciences. 2011.68(11): 1983-2002.
Quantitative Proteomics Discloses MET Expression in Mitochondria as a Direct Target of MET Kinase Inhibitor in Cancer Cells
Tiannan Guo, Yi Zhu, Chee Sian Gan, Sze Sing Lee, JiangZhu, Haixia Wang, Xin Li, James Christensen, Shiang Huang, Oi Lian Kon*, Siu Kwan Sze*.
Molecular & Cellular Proteomics. 2010.9(12): 2629-2641.
Novel Application of Electrostatic Repulsion-Hydrophilic Interaction Chromatography (ERLIC) in Shotgun Proteomics: Comprehensive Profiling of Rat Kidney Proteome
Piliang Hao, Tiannan Guo, Xin Li, Sunil S. Adav, Jie Yang, Meng Wei, and Siu Kwan Sze*
Journal of Proteome Research. 2010.9 (7). 3520-3526.
Simultaneous characterization of glyco- and phospho-proteomes of mouse brain membrane proteome with electrostatic repulsion hydrophilic interaction chromatography (ERLIC)
Huoming Zhang, Tiannan Guo, Xin Li, Arnab Datta, Jung Eun Park, Jie Yang, Sai Kiang Lim, James P. Tam, Siu Kwan Sze*.
Molecular & Cellular Proteomics. 2010.9(4):635-647.
Elucidating in vivo structural dynamics in integral membrane protein by hydroxyl radical footprinting
Yi Zhu, Tiannan Guo, Jung Eun Park, Xin Li, Wei Meng, Arnab Datta, Marshall Bern, Sai Kiang Lim, Siu Kwan Sze*.
Molecular & Cellular Proteomics. 2009.8(8): 1999-2010.
Elucidating the structure of cyclotide by partial acid hydrolysis and LC-MS/MS analysis
Siu Kwan Sze*, Wei Wang, Wei Meng, Randong Yuan, Tiannan Guo, Yi Zhu, James P. Tam*.
Analytical Chemistry. 2009.81(3): 1079-88.
One-step procedure for peptide extraction from in-gel digestion sample for mass spectrometric analysis
Wei Meng, Huoming Zhang, Tiannan Guo, Chhiti Pandey, Yi Zhu, Oi Lian Kon, Siu Kwan Sze*.
Analytical Chemistry. 2008.80(24): 9797-9805.
Hybridization of Pulsed-Q Dissociation and Collision-Activated Dissociation in Linear Ion Trap Mass Spectrometer for iTRAQ Quantitation
Tiannan Guo, Chee Sian Gan, Huoming Zhang, Yi Zhu, Oi Lian Kon, Siu Kwan Sze*.
Journal of Proteome Research. 2008.7(11): 4831-4840.
A Comparative Study of Electrostatic Repulsion-Hydrophilic Interaction Chromatography (ERLIC) versus SCX-IMAC-Based Methods for PhosphopeptideIsolation/Enrichment
Chee Sian Gan, Tiannan Guo, Huoming Zhang, Sai Kiang Lim, Siu Kwan Sze*.
Journal of Proteome Research. 2008.7(11): 4869-4877.
