WEN GROUP
PROTEIN-ASSEMBLY ENGINEERING LAB


Journal Articles


  1. Kelsey R. van Straalen, Joseph Kirma, Christine M. Yee, Luke F. Bugada, Syed M. Rizvi, Fei Wen, Rachael Wasikowski, Jennifer Fox, Tran H. Do, Charles F. Schuler, Enze Xing, Amanda S. MacLeod, Paul W. Harms, Celine C. Berthier, J. Michelle Kahlenberg, Monica W.L. Leung, Lam C. Tsoi, and Johann E. Gudjonsson. Disease heterogeneity and molecular classification of inflammatory palmoplantar diseases. Journal of Allergy and Clinical Immunology.2024. (PMID: 39089334) Download PDF

  2. Brett D. Hill, Andrew J. Zak, Sanjeev Raja, Luke F. Bugada, Syed M. Rizvi, Saiful B. Roslan, Hong Nhi Nguyen, Judy Chen, Hui Jiang, Akira Ono, Daniel R. Goldstein, and Fei Wen. iGATE analysis improves the interpretability of single-cell immune landscape of influenza infection. JCI Insight. 2024;9(12):e172140. (PMID: 38814732) Download PDF

  3. Xiao Yin Ma, Bryan Coleman, Ponnandy Prabhu, Margaret Yang, and Fei Wen. Engineering Compositionally Uniform Yeast Whole-Cell Biocatalysts with Maximized Surface Enzyme Density for Cellulosic Biofuel Production. ACS Synthetic Biology 2024, 13, (4), 1225-1236. Download PDF

  4. Chengyi Li, Ryan Clauson, Luke F. Bugada, Fang Ke, Bing He, Zhixin Yu, Hongwei Chen, Binyamin Jacobovitz, Hongxiang Hu, Polina Chuikov, Brett Dallas Hill, Syed M. Rizvi, Yudong Song, Kai Sun, Pasieka Axenov, Daniel Huynh, Xinyi Wang, Lana Garmire, Yu Leo Lei, Irina Grigorova, Fei Wen, Marilia Cascalho, Wei Gao, and Duxin Sun. Antigen-Clustered Nanovaccine Achieves Long-Term Tumor Remission by Promoting B/CD 4 T Cell Crosstalk. ACS Nano 2024 18 (13), 9584-9604. (PMID: 38513119) Download PDF

  5. Xiao Yin Ma, Bryan Coleman, Ponnandy Prabhu, and Fei Wen. Segmentation and evaluation of pathway module efficiency: Quantitative approach to monitor and overcome evolving bottlenecks in xylose to ethanol pathway. Bioresour. Technol. 2024, 395, 130377. (PMID: 38278451) Download PDF

  6. Andrew J. Zak, Trang Hoang, Christine M. Yee, Syed M. Rizvi, Ponnandy Prabhu, and Fei Wen. Pseudotyping Improves the Yield of Functional SARS-CoV-2 Virus-like Particles (VLPs) as Tools for Vaccine and Therapeutic Development. Int. J. Mol. Sci. 2023, 24, 14622. (PMID: 37834067) Download PDF

  7. Jessica L. Turnier, Christine M. Yee, Jacqueline A. Madison, Syed M. Rizvi, Celine C. Berthier, Fei Wen, and J. Michelle Kahlenberg. Imaging mass cytometry reveals predominant innate immune signature and endothelial-immune cell interaction in juvenile myositis compared to lupus skin. Arthritis Rheumatol., 2022. (PMID: 35762881) Download PDF

  8. Yudong Song, Luke Bugada, Ruiting Li, Hongxiang Hu, Luchen Zhang, Chengyi Li, Hebao Yuan, Krishani Kumari Rajanayake, Nathan A. Truchan, Fei Wen, Wei Gao, and Duxin Sun. Albumin nanoparticle containing a PI3Kγ inhibitor and paclitaxel in combination with α-PD1 induces tumor remission of breast cancer in mice. Sci. Transl. Med., 2022. Vol 14, Issue 643. (PMID: 35507675) Download PDF

  9. Allison C. Billi, Feiyang Ma, Olesya Plazyo, Mehrnaz Gharaee-Kermani, Rachael Wasikowski, Grace A. Hile, Xianying Xing, Christine M. Yee, Syed M. Rizvi, Mitra P. Maz, Celine C. Berthier, Fei Wen, Lam C. Tsoi, Matteo Pellegrini, Robert L. Modlin, Johann E. Gudjonsson, and J. Michelle Kahlenberg. Nonlesional lupus skin contributes to inflammatory education of myeloid cells and primes for cutaneous inflammation. Sci. Transl. Med., 2022. Vol 14, Issue 642. (PMID: 35476593) Download PDF

  10. Lisa Abernathy-Close, Stephanie Lazar, Jasmine Stannard, Lam C. Tsoi, Sean Eddy, Syed M. Rizvi, Christine M. Yee, Emily M. Myers, Rajaie Namas, Lori Lowe, Tamra J. Reed, Fei Wen, Johnann E. Gudjonsson, J. Michelle Kahlenberg, and Celine C. Berthier. B Cell Signatures Distinguish Cutaneous Lupus Erythematosus Subtypes and the Presence of Systemic Disease Activity. Front. Immunol., 2021. 12:775353. (PMID: 34868043) Download PDF

  11. Xiao Yin Ma, Brett D. Hill, Trang Hoang, and Fei Wen. Virus-inspired Strategies for Cancer Therapy. Seminars in Cancer Biology, 2021. (PMID: 34182141) Download PDF

  12. Andrew J. Zak, Luke F. Bugada, Xiao Yin Ma, and Fei Wen. Virtual versus In-Person Presentation as a Project Deliverable Differentially Impacts Student Engaged-Learning Outcomes in a Chemical Engineering Core Course. J. Chem. Educ. 2021, 98, 4, 1174–1181. Download PDF

  13. Jiali Yu, Michael D. Green, Shasha Li, Yilun Sun, Sara N. Journey, Jae Eun Choi, Syed Monem Rizvi, Angel Qin, Jessica J. Waninger, Xueting Lang, Zoey Chopra, Issam El Naqa, Jiajia Zhou, Yingjie Bian, Long Jiang, Alangoya Tezel, Jeremy Skvarce, Rohan K. Achar, Merna Sitto, Benjamin S. Rosen, Fengyun Su, Sathiya P. Narayanan, Xuhong Cao, Shuang Wei, Wojciech Szeliga, Linda Vatan, Charles Mayo, Meredith A. Morgan, Caitlin A. Schonewolf, Kyle Cuneo, Ilona Kryczek, Vincent T. Ma, Christopher D. Lao, Theodore S. Lawrence, Nithya Ramnath, Fei Wen, Arul M. Chinnaiyan, Marcin Cieslik, Ajjai Alva, and Weiping Zou. Liver metastasis restrains immunotherapy efficacy via macrophage-mediated T cell elimination. Nat Med 27, 152–164 (2021). (PMID: 33398162) Download PDF

  14. Johann E. Gudjonsson, Lam C. Tsoi, Feiyang Ma, Allison C. Billi, K.R. van Straalen, ARJV Vossen, H.H van der Zee, Paul W. Harms, Rachael Wasikowski, Christine M. Yee, Syed M. Rizvi, Xianying Xing, Enze Xing, Olesya Plazyo, Chang Zeng, Matthew T. Patrick, Margaret M. Lowe, Richard E. Burney, Jeffrey H. Kozlow10, Jill R. Cherry-Bukowiec, Yanyun Jiang, Joseph Kirma, Stephan Weidinger, Kelly C. Cushing, Michael D. Rosenblum, Celine Berthier, Amanda S. MacLeod, John J. Voorhees, Fei Wen, J. Michelle Kahlenberg, Emanual Maverakis, Robert L. Modlin, and Errol P. Prens. Contribution of plasma cells and B-cells to hidradenitis suppurativa pathogenesis. Journal of Clinical Investigation Insight, 2020 Oct 2; 5(19):139930. (PMID: 32853177) Download PDF

  15. Sho Kitamoto, Hiroko Nagao-Kitamoto, Yizu Jiao, Merritt G. Gillilland III, Atsushi Hayashi, Jin Imai, Kohei Sugihara, Mao Miyoshi, Jennifer C. Brazil, Peter Kuffa, Brett D. Hill, Syed M. Rizvi, Fei Wen, Shrinivas Bishu, Naohiro Inohara, Kathryn A. Eaton, Asma Nusrat, Yu L. Lei, William V. Giannobile, and Nobuhiko Kamada. The Intermucosal Connection between the Mouth and Gut in Commensal Pathobiont-Driven Colitis. Cell, 2020, Volume 182, Issue 2, Pages 447-462.e14. (PMID: 32758418) Download PDF

  16. Brett Dallas Hill, Ponnandy Prabhu, Syed M. Rizvi, and Fei Wen. Yeast Intracellular Staining (yICS): Enabling High-throughput, Quantitative Detection of Intracellular Proteins via Flow Cytometry for Pathway Engineering. ACS Synthetic Biology 2020, 9, 8, 2119–2131. Download PDF

  17. Andrew J. Zak, Brett Dallas Hill, Syed M. Rizvi, Mason R. Smith, Madeleine Yang, and Fei Wen. Enhancing the Yield and Quality of Influenza Virus-like Particles (VLPs) Produced in Insect Cells by Inhibiting Cytopathic Effects of Matrix Protein M2. ACS Synthetic Biology 2019, 8, 10, 2303–2314. (PMID: 31487465) Download PDF

  18. Mason R. Smith, Hui Gao, Ponnandy Prabhu, Luke F. Bugada, Cori Roth, Deepika Mutukuri, Christine M. Yee, Lester Lee, Robert M. Ziff, Jung-Kul Lee, and Fei Wen. Elucidating structure–performance relationships in whole-cell cooperative enzyme catalysis. Nature Catalysis 2, 809–819 (2019). Download PDF

  19. Mason R. Smith, Luke F. Bugada, and Fei Wen. Rapid Microsphere Assisted Peptide Screening (MAPS) of Promiscuous MHCII‐Binding Peptides in Zika Virus Envelope Protein. AIChE J., 2020 Mar;66(3):e16697. (PMID: 33343002) Download PDF

  20. Allison C. Billi, Mehrnaz Gharaee-Kermani, Joseph Fullmer, Lam C. Tsoi, Brett D. Hill, Dennis Gruszka, Jessica Ludwig, Xianying Xing, Shannon Estadt, Sonya J. Wolf, Syed Monem Rizvi, Celine C. Berthier, Jeffrey B. Hodgin, Maria A. Beamer, Mrinal K. Sarkar, Yun Liang, Ranjitha Uppala, Shuai Shao, Chang Zeng, Paul W. Harms, Monique E. Verhaegen, John J. Voorhees, Fei Wen, Nicole L. Ward, Andrzej A. Dlugosz, J. Michelle Kahlenberg, and Johann E. Gudjonsson. The female-biased factor VGLL3 drives cutaneous and systemic autoimmunity. Journal of Clinical Investigation Insight, 2019;4(8):e127291. (PMID: 30996136) Download PDF

  21. Luke Francesco Bugada, Mason R. Smith, and Fei Wen. Engineering Spatially Organized Multi-enzyme Assemblies for Complex Chemical Transformation. ACS Catalysis, 2018, 8: 7898-7906. Download PDF

  22. Christine Yee, Andrew Joseph Zak, Brett Dallas Hill, and Fei Wen. The Coming Age of Insect Cells for Manufacturing and Development of Protein Therapeutics. Industrial & Engineering Chemistry Research, 2018, 57 (31): 10061-10070. (PMID: 30886455) Download PDF

  23. Mason R. Smith, Stephanie V. Tolbert, and Fei Wen. Protein-scaffold Directed Nanoscale Assembly of T Cell Ligands: Artificial Antigen Presentation with Defined Valency, Density and Ratio. ACS Synthetic Biology, 2018, 7 (6): 1629-1639. (PMID: 29733631) Download PDF

  24. Brett D. Hill, Andrew Zak, Eshita Khera, Fei Wen. Engineering Virus-like Particles for Antigen and Drug Delivery. Current Protein & Peptide Science, 2018, 19: 112-127. (PMID: 27875963) Download PDF

  25. Ming Huang, Wenjun Huang, Fei Wen, and Ronald G. Larson. Efficient Estimation of Binding Free Energies between Peptides and an MHC Class II Molecule Using Course-Grained Molecular Dynamics with a Weighted Histogram Analysis Method. Journal of Computational Chemistry, 2017, 38: 2007-2019. (PMID: 28660628) Download PDF

  26. Hui Gao, Tae-Su Kim, Primata Mardina, Pengji Zhou, Fei Wen, and Jung-Kul Lee. Rare sugar production by coupling of NADH oxidase and L-arabinitol dehydrogenase. RSC Advances, 2016, 6: 66609-66616. Download PDF

  27. Fei Wen and Eshita Khera. IDENTIFY-SOLVE-BROADCAST YOUR OWN TRANSPORT PHENOMENON: Student-Created YouTube Videos to Foster Active Learning in Mass and Heat Transfer. Chemical Engineering Education, 2016, Vol. 50, No. 3. Download PDF

  28. Mason Smith, Eshita Khera, Fei Wen. Engineering Novel and Improved Biocatalyst by Cell Surface Display. Industrial and Engineering Chemistry Research, 2015, 54 (16): 4021-4032. (PMID: 29056821) Download PDF

  29. Hui Gao, In-Won Kim, Joon-Ho Choi, Eshita Khera, Fei Wen*, Jung-Kul Lee*. Repeated production of L-xylulose by an immobilized whole-cell biocatalyst harboring L-arabinitol dehydrogenase coupled with an NAD+ regeneration system. Biochemical Engineering Journal, 2015, 96: 23-28, *Denotes corresponding author Download PDF

  30. Hui Gao, Eshita Khera, Jung-Kul Lee*,Fei Wen*. Immobilization of multi-biocatalysts in alginate beads for cofactor regeneration and improved reusability. Journal of Visual Experiments, 2016 (PMID: 27166648) *Denotes corresponding author. (PMID: 27166648) Download PDF

  31. Fei Wen, Huimin Zhao. Construction and Screening of An Antigen-derived Peptide Library Displayed on Yeast Cell Surface for CD4+ T Cell Epitope Identification. In Methods in Molecular Biology, 2013, 1061: 245-64 (PMID: 23963942) Download PDF

  32. Jie Sun, Fei Wen, Tong Si, Jianhe Xu, Huimin Zhao. Direct Conversion of Xylan to Ethanol by Recombinant Saccharomyces cerevisiae Strains Displaying an Engineered Mini-hemicellulosome. Applied and Environmental Microbiology, 2012, 78(11): 3837-45. (PMID: 22447594) Download PDF

  33. Jie Sun, Zengyi Shao, Hua Zhao, Nikhil Nair, Fei Wen, Jianhe Xu, Huimin Zhao. Cloning and Characterization of a Panel of Constitutive Promoters for Applications in Pathway Engineering in Saccharomyces cerevisiae. Biotechnology and Bioengineering, 2012, 109(8): 2082-92. (PMID: 22383307)Download PDF

  34. Fei Wen, Dhruv Sethi, Kai Wucherpfennig, Huimin Zhao. Cell surface display of functional human MHC class II proteins: yeast display versus insect cell display. Protein Engineering, Design, and Selection, 2011, 24(9): 701-9. (PMID: 21752831) Download PDF

  35. Fei Wen, Jie Sun, Huimin Zhao. Yeast Surface Display of Trifunctional Minicellulosomes for Simultaneous Saccharification and Fermentation of Cellulose to Ethanol. Applied and Environmental Microbiology, 2010, 76(4): 1251-60. (PMID: 20023102) Download PDF

  36. Fei Wen, Nikhil U. Nair, Huimin Zhao. Protein Engineering in Designing Tailored Enzymes and Microorganisms for Biofuels Production. Current Opinion in Biotechnology, 2009, 20 (4): 412-9. (PMID: 19660930) Download PDF

  37. Zhilei Chen*, Fei Wen*, Ning Sun, Huimin Zhao. Directed Evolution of Homing Endonuclease I-SceI with Altered Sequence Specificity. Protein Engineering, Design, and Selection, 2009, 22(4): 249-56. (PMID: 19176595) * Denotes shared 1st authorship.Download PDF

  38. Fei Wen, Olga Esteban, Huimin Zhao. Rapid Identification of CD4+ T-cell Epitopes Using Yeast Displaying Pathogen-derived Peptide Library. Journal of Immunological Methods, 2008, 336(1): 37-44. (PMID: 18448115) Download PDF

  39. Huimin Yu, Yue Shi, Zhuoling Tian, Fei Wen, Zhongyao, Shen. Heterogenous Expression of Nitrile Hydratase Gene of Nocardia sp. in Recombinant Pichia pastoris. Acta Microbiologica Sinica, 2005, 45 (6): 959-962. (PMID: 16496712) Download PDF


Book Chapters


  1. Luke F. Bugada, Mason R. Smith, and Fei Wen . Rapid Identification of MHCII-Binding Peptides Through Microsphere-Assisted Peptide Screening (MAPS). T-Cell Repertoire Characterization. Methods in Molecular Biology, 2022, vol 2574, pp. 233–250. Download PDF

  2. Fei Wen, Mason R. Smith, and Huimin Zhao. Construction and Screening of an Antigen-Derived Peptide Library Displayed on Yeast Cell Surface for CD4+ T Cell Epitope Identification. Immunoproteomics. Methods in Molecular Biology, 2019, vol 2024, pp. 213-234. Download PDF

  3. Fei Wen, Sheryl Rubin-Pitel, Huimin Zhao. Engineering of Therapeutic Proteins. In Protein Engineering and Design, Sheldon J. Park and Jennifer R. Cochran., CRC Press, Taylor & Francis Group, FL. 2009, pp. 153-177. Download PDF

  4. Fei Wen, Michael McLachlan, Huimin Zhao. Directed Evolution, Novel and Improved Enzymes. In Wiley Encyclopedia of Chemical Biology, Tadhg P. Begley, John Wiley & Sons, Inc. Hoboken, NJ. 2008, doi:10.1002/9780470048672.wecb125. Download PDF

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