Publications

  1. Yapeng Su, Chunmei Liu, Xiang Lu, Guideng Li, Shiqun Shao, Yan Kong, Jihoon W. Lee, Rachel H. Ng, Stephanie Wong, Lidia Robert, Charles Warden, Victoria Liu, Jie Chen, Zhuo Wang, Guangrong Qin, Yin Tang, Hanjun Cheng, Alphonsus H. C. Ng, Songming Peng, Min Xue, Dazy Johnson, Yu Xu, Jinhui Wang, Xiwei Wu, Ilya Shmulevich, Qihui Shi, Raphael Levine, Antoni Ribas, David Baltimore, Jun Guo, James R. Heath* and Wei Wei* "Sequential transcriptional waves and NF-κB-driven chromatin remodeling direct drug-induced dedifferentiation in cancer", Nature Communications, in revision.​
  2. Xiaowei Yan, Zhuo Wang, Ziming Li, Yichun Zhao, Shun Lu, Qihui Shi* and Wei Wei* "DTCFinder: a bench-to-bits toolkit for label-free, whole-spectrum analysis of disseminated and circulating tumor cells in liquid biopsies", Nature Cancer, in review.
  3. Zhuo Wang, Qing Luo, Jie Wu, Li Lu, Wenjie Ding, Yichun Zhao, Yongfeng Yu, Ruoran Qiu, Ling Zhu, Xinxing Ouyang, Wendi Xuzhang, Shun Lu,* Wei Wei,* Qihui Shi,* Ziming Li* "Spatial multi-omics unveils the monoclonal origin, neuroendocrine plasticity, and microenvironment niches in combined small cell lung cancer", Cell Reports Medicine, in revision.
  4. Cameron T Flower, Chunmei Liu, Hui-Yu Chuang, Xiaoyang Ye, Hanjun Cheng, James R Heath*, Wei Wei* and Forest M White* "Signaling and transcriptional dynamics underlying early adaptation to oncogenic BRAF inhibition", Cell Systems, 16, 101239, 2025
  5. Jungwoo Kim, Rachel H Ng, JingXin Liang, Dazy Johnson, Young Shik Shin, Arion F Chatziioannou, Michael E Phelps, Wei Wei, Raphael D Levine and James R Heath* "Kinetic Trajectories of Glucose Uptake in Single Cancer Cells Reveal a Drug-Induced Cell-State Change Within Hours of Drug Treatment", The Journal of Physical Chemistry B, 128, 7978-7986, 2024
  6. Liwei Yang, Juho Kim, Long Chen, Wei Wei* and Jun Wang* "Detection of >400 Cluster of Differentiation Biomarkers and Pathway Proteins in Single Immune Cells by Cyclic Multiplex In Situ Tagging for Single-Cell Proteomic Studies", Analytical Chemistry, 96,  17387–17395, 2024.
  7. Hanjun Cheng, Yin Tang, Zhonghan Li, Zhili Guo, James R Heath, Min Xue* and Wei Wei* "Non-mass spectrometric targeted single-cell metabolomics", Trends in Analytical Chemistry, 168, 117300, 2023
  8. Yapeng Su, Dan Yuan, Daniel G Chen, Rachel H Ng, Kai Wang, Jongchan Choi, Sarah Li, Sunga Hong, Rongyu Zhang, Jingyi Xie, Sergey A Kornilov, Kelsey Scherler, Ana Jimena Pavlovitch-Bedzyk, Shen Dong, Christopher Lausted, Inyoul Lee, Shannon Fallen, Chengzhen L Dai, Priyanka Baloni, Brett Smith, Venkata R Duvvuri, Kristin G Anderson, Jing Li, Fan Yang, Caroline J Duncombe, Denise J McCulloch, Clifford Rostomily, Pamela Troisch, Jing Zhou, Sean Mackay, Quinn DeGottardi, Damon H May, Ruth Taniguchi, Rachel M Gittelman, Mark Klinger, Thomas M Snyder, Ryan Roper, Gladys Wojciechowska, Kim Murray, Rick Edmark, Simon Evans, Lesley Jones, Yong Zhou, Lee Rowen, Rachel Liu, William Chour, Heather A Algren, William R Berrington, Julie A Wallick, Rebecca A Cochran, Mary E Micikas, the ISB-Swedish COVID19 Biobanking Unit, Terri Wrin, Christos J Petropoulos, Hunter R Cole, Trevan D Fischer, Wei Wei, Dave SB Hoon, Nathan D Price, Naeha Subramanian, Joshua A Hill, Jennifer Hadlock, Andrew T Magis, Antoni Ribas, Lewis L Lanier, Scott D Boyd, Jeffrey A Bluestone, Helen Chu, Leroy Hood, Raphael Gottardo, Philip D Greenberg, Mark M Davis, Jason D Goldman* and James R Heath* "Multiple Early Factors Anticipate Post-Acute COVID-19 Sequelae", Cell, 185, 881-895, 2022
  9. Zhili Guo, Hanjun Cheng,  Zhonghan Li, Shiqun Shao, Priyanka Sarkar, Siwen Wang, Rohit Chaudhuri, Nicole G. Perkins, Fei Ji, Wei Wei* and Min Xue* "Single-cell profiling of fatty acid uptake using surface-immobilized dendrimers", Journal of the American Chemical Society, 143, 11191–11198, 2021
  10. Hanjun Cheng, Zhonghan Li, Zhili Guo, Shiqun Shao, Li Mo, Wei Wei* and Min Xue* "Single-cell profiling of D-2-hydroxyglutarate using surface-immobilized resazurin analogs", Biosensors and Bioelectronics, 190, 113368, 2021 
  11. Liu Yang, Xiaowei Yan, Jie Chen, Qiong Zhan, Yingqi Hua, Shili Xu, Yu Dong, Ziming Li, Zhuo Wang, Dongqing Zuo, Min Xue, Yin Tang, Harvey R Herschman, Shun Lu*, Qihui Shi* and Wei Wei* "Hexokinase 2 discerns a novel circulating tumor cell population associated with poor prognosis in lung cancer patients", Proceedings of the National Academy of Sciences USA,  118, e2012228118, 2021 
  12. Yapeng Su, Daniel Chen, Christopher Lausted, Dan Yuan, Jongchan Choi, Cheng Dai, Valentin Voillet, Kelsey Scherler, Pamela Troisch, Venkata R. Duvvuri, Priyanka Baloni, Guangrong Qin, Brett Smith, Sergey Kornilov, Clifford Rostomily, Alex Xu, Jing Li, Shen Dong, Alissa Rothchild, Jing Zhou, Kim Murray, Rick Edmark, Sunga Hong, Lesley Jones, Yong Zhou, Ryan Roper, Sean Mackay, D. Shane O'Mahony,  Christopher R Dale, Julie A Wallick, Heather A Algren, Zager A Michael, the ISB-Swedish COVID19 Biobanking Unit, Wei Wei, Nathan D. Price, Sui Huang, Naeha Subramanian, Kai Wang, Andrew Magis, Jennifer Hadlock, Leroy Hood, Alan Aderem, Jeffrey A. Bluestone, Lewis L. Lanier, Phil Greenberg, Raphael Gottardo, Mark M. Davis, Jason D. Goldman* and James R. Heath*, “Multi-omics resolves a sharp disease-state shift between mild and moderate COVID-19” Cell, 183, 1479-1495, 2020 
  13. Zhuo Wang, Jie Chen, Mingzhe Cao, Liu Yang, Yu Dong, Rulin Zhang, Heng Quan, Qi Jiang, Yingqi Hua, Guibo Li, Zhuohui Yan, Yanlan Yu, Wei Wei, Peihua Lu, Jun Wu, and Qihui Shi* "Single-Cell Sequencing-Enabled Hexokinase 2 Assay for Noninvasive Bladder Cancer Diagnosis and Screening by Detecting Rare Malignant Cells in Urine", Analytical Chemistry,  92, 16284-16292, 2020
  14. Yapeng Su ,  Melissa Ko , Hanjun Cheng , Ronghui Zhu , Min Xue , Jessica Wang , Jihoon Lee , Luke Frankiw , Alexander Xu , Stephanie Wong , Lidia Robert , Kaitlyn Takata , Sui Huang , Antoni Ribas , Raphael Levine , Garry Nolan , Wei Wei , Sylvia Plevritis* , David Baltimore* and James R. Heath* "Multi-omic single-cell snapshots reveal multiple independent trajectories to drug tolerance in a melanoma cell line​", Nature Communications, 11, 2345 (2020)
  15. Hanjun Cheng, Rong Fan* and Wei Wei* "Cancer Systems Biology in the Era of Single‐Cell Multi‐Omics", Proteomics, 20, 1900106, 2020
  16. Ziming Li, Zhuo Wang, Yin Tang, Xiang Lu, Jie Chen, Yu Dong, Baojun Wu, Chunying Wang, Liu Yang, Zhili Guo, Min Xue, Shun Lu*, Wei Wei* and Qihui Shi* “Liquid biopsy-based single-cell metabolic phenotyping of lung cancer patients for informative diagnosis” Nature Communications, 10, 3856, 2019​
  17. Wei Wei* and Rong Fan "Special Issue on Single‐Cell Multi‐Omics for Immuno‐Oncology and Cancer Systems Biology" Proteomics, 19, 1900235,2019.
  18. Yapeng Su, Marcus Bintz, Yezi Yang, Lidia Robert, Alphonsus Ng, Antoni Ribas, James R. Heath and Wei Wei* "Phenotypic heterogeneity and evolution of melanoma cells associated with targeted therapy resistance" PLoS Computational Biology, 15, e1007034, 2019.
  19. Patrick Y. Wen*, Mehdi Touat, Brian M. Alexander, Ingo K. Mellinghoff, Shakti Pamkissoon, Christine S. McCluskey, Kristine Pelton, Sam Haidar, Sankha S. Basu, Sarah C. Gaffey, Loreal E. Brown, Juan Emmanuel Martinez-Ledesma, Shaofang Wu, Jungwoo Kim, Wei Wei, Mi-Ae Park, Jason T. Huse, John G. Kuhn, Mikael L. Rinne, Howard Colman, Nathalie Y. R. Agar, Antonio M. Omuro, Lisa M. DeAngelis, Mark R. Gilbert, John F. de Groot, Timothy F. Cloughesy, Andrew S. Chi, Thomas M. Roberts, Jean J. Zhao, Eudocia Q. Lee, Lakshmi Nayak, James R. Heath, Laura L. Horky, Tracy T. Batchelor, Rameen Beroukhim, Susan M. Chang, Azra H. Ligon, Ian F. Dunn, Dimpy Koul, Geoffrey S. Young, Michael D. Prados, David A. Reardon, W.K. Alfred Yung, and Keith L. Ligon "Buparlisib in patients with recurrent glioblastoma harbouring PI3K pathway activation: an open label, multicentre, multi-arm, phase II trial" Journal of Clinical Oncology, 37, 741-750, 2019.
  20. Shiqun Shao, Zhonghan Li, Hanjun Cheng, Siwen Wang, Nicole G Perkins, Priyanka Sarkar, Wei Wei, and Min Xue* “A Chemical Approach for Profiling Intracellular AKT Signaling Dynamics from Single Cells” Journal of the American Chemical Society, 140, 13586-13589, 2018.
  21. Zhonghan Li, Hanjun Cheng, Shiqun Shao, Li Mo, Jonathan Tsang, Pu Zeng, Zhili Guo, Siwen Wang, Thomas Graves, David A. Nathanson, James R. Heath, Wei Wei* and Min Xue* "Surface Immobilization of Redox-Labile Fluorescent Probes: Enabling Single-Cell Co-Profiling of Aerobic Glycolysis and Oncogenic Protein Signaling Activities.” Angew. Chem. Int. Ed., 57, 11554-11558, 2018
  22. Yapeng Su†, Wei Wei†*, Lidia Robert†, Min Xue, Jennifer Tsoi, Angel Garcia-Diaz, Blanca Homet Moreno, Jungwoo Kim, Rachel H.Y. Ng, Jihoon W. Lee, Richard C. Koya, Begonya Comin-Anduix, Thomas G. Graeber, Antoni Ribas* and James R. Heath* "Single-Cell Analysis Resolves the Cell State Transition and Signaling Dynamics Associated with Melanoma Drug-Induced Resistance.” Proceedings of the National Academy of Sciences USA 114, 13679–84. 2017 (†: co-first authors). 
  23. Yapeng Su, Qihui Shi* and Wei Wei* "Single cell proteomics in biomedicine: High-dimensional data acquisition, visualization and analysis" Proteomics, 17, 1600267, 2017
  24. Yao Lu, Wei Wei* and Qihui Shi* "Microfluidics High-Throughput Single-Cell Functional Proteomics" Lab on a Chip, 17, 1250–1263, 2017 (*: co-corresponding authors). 
  25. Yin Tang, Zhuo Wang, Ziming Li, Jungwoo Kim, Yuliang Deng, Yan Li, James R. Heath, Wei Wei*, Shun Lu* and Qihui Shi* "High-throughput screening of rare metabolically active tumor cells in pleural effusion and peripheral blood of lung cancer patients" Proceedings of the National Academy of Sciences USA, 114, 2544–2549, 2017 (*: co-corresponding authors). 
  26. Liu Yang, Zhihua Wang, Yuliang Deng, Yan Li*, Wei Wei*, Qihui Shi*   Single-Cell, Multiplexed Protein Detection of Rare Tumor Cells Based on a Beads-on-Barcode Antibody Microarray Analytical Chemistry, 88, 11077–11083, 2016 (*: co-corresponding authors). 
  27. Wei Wei, Young Shik Shin, Min Xue, Tomoo Matsutani, Kenta Masui, Huijun Yang, Shiro Ikegami, Yuchao Gu, Hermann Ken, Dazy Johnson, Xiangming Ding, Kiwook Hwang, Jungwoo Kim, Jian Zhou, Yapeng Su, Xinmin Li, Bruno Bonetti, Rajesh Chopra, C. David James, Webster K. Cavenee, Timothy F. Cloughesy, Paul S. Michel*, James R. Heath*, Beatrice Gini   Single cell phosphoproteomics resolves adaptive signaling dynamics and informs targeted combination therapy in glioblastoma Cancer Cell, 2016; 29(4): 563-573. 
  28. Min Xue, Wei Wei, Yapeng Su, Dazy Johnson, James R. Heath*   Supramolecular Probes for Assessing Glutamine Uptake Enable Semi-Quantitative Metabolic Models in Single Cells Journal of the American Chemical Society, 2016; 138(9): 3085–3093. 
  29. Min Xue†, Wei Wei†, Yapeng Su, Jungwoo Kim, Young Shik Shin, Wilson X. Mai, David A. Nathanson and James, R. Heath*   Chemical Methods for the Simultaneous Quantitation of Metabolitesand Proteins from Single Cells Journal of the American Chemical Society, 2015; 137: 4066–4069; (†: co-first authors). 
  30. Yu Zhang, Yin Tang, Shuai Sun, Zhihua Wang, Wenjun Wu, Xiaodong Zhao, Daniel M. Czajkowsky, Yan Li, Jianhui Tian, Ling Xu, Wei Wei, Yuliang Deng, and Qihui Shi*   Single-Cell Codetection of Metabolic Activity, Intracellular Functional Proteins, and Genetic Mutations from Rare Circulating Tumor Cells Analytical Chemistry, 2015; 87(19): 9761-9768. 
  31. Yuliang Deng, Yu Zhang, Shuai Sun, Zhihua Wang, Minjiao Wang, Beiqin Yu, Daniel M. Czajkowsky, Bingya Liu, Yan Li, Wei Wei, Qihui Shi*   An Integrated Microfluidic Chip System for Single-Cell Secretion Profiling of Rare Circulating Tumor Cells Scientific Reports, 2014; 4: 7499. 
  32. Yi Jing, Xinyu Bao, Wei Wei, Chun Li, Ke Sun, David P. R. Aplin, Yang Ding, Zhong-Lin Wang, Yoshio Bando, Deli Wang   Catalyst-Free Heteroepitaxial MOCVD Growth of InAs Nanowires on Si Substrates Journal of Physical Chemistry C, 2014; 118: 1696-1705. 
  33. Jing Yu, Jing Zhou, Alex Sutherland, Wei Wei, Young Shik Shin, Min Xue, James R Heath*   Microfluidics-Based Single-Cell Functional Proteomics for Fundamental and Applied Biomedical Applications Annual Reviews of Analytical Chemistry, 2014; 7: 275-295. 
  34. Wei Wei, Qihui Shi, Francoise Remacle, Lidong Qin, David B Shackelford, Young Shik Shin, Paul S Mischel, RD Levine*, James R Heath*   Hypoxia induces a phase transition within a kinase signaling network in cancer cells Proceedings of the National Academy of Sciences of the United States of America, 2013; 110: E1352-E1360. 
  35. Wei Wei, Young Shik Shin, Chao Ma, Jun Wang, Meltem Elitas, Rong Fan, James R Heath*   Microchip platforms for multiplex single-cell functional proteomics with applications to immunology and cancer research Genome Medicine, 2013; 5: 75. 
  36. Jun Wang, Douglas Tham, Wei Wei, Young Shik Shin, Chao Ma, Habib Ahmad, Qihui Shi, Jenkan Yu, Raphael D Levine, James R Heath*   Quantitating cell–cell interaction functions with applications to glioblastoma multiforme cancer cells Nano Letters, 2012; 12: 6101–6106. 
  37. Qihui Shi, Lidong Qin, Wei Wei, Feng Geng, Rong Fan, Young Shik Shin, Deliang Guo, Leroy Hood, Paul S Mischel, James R Heath*   Single-cell proteomic chip for profiling intracellular signaling pathways in single tumor cells Proceedings of the National Academy of Sciences of the United States of America, 2012; 109: 419-424. 
  38. Young Shik Shin, Françoise Remacle, Rong Fan, Kiwook Hwang, Wei Wei, Habib Ahmad, RD Levine, James R Heath*   Protein signaling networks from single cell fluctuations and information theory profiling Biophysical Journal, 2011; 100: 2378-2386. 

Previous publications in the field of Nanotechnology:
  1. Yi Jing, Xinyu Bao, Wei Wei, Chun Li, Ke Sun, David P. R. Aplin, Yang Ding, Zhong-Lin Wang, Yoshio Bando, Deli Wang*   Catalyst-Free Heteroepitaxial MOCVD Growth of InAs Nanowires on Si Substrates Journal of Physical Chemistry C, 2014; 118: 1696-1705. 
  2. Tingbin Yang, Ke Sun, Xilan Liu, Wei Wei, Tianzhi Yu, Xiong Gong, Deli Wang*, Yong Cao*   Zinc Oxide Nanowire As an Electron-Extraction Layer for Broadband Polymer Photodetectors with an Inverted Device Structure The Journal of Physical Chemistry C, 2012; 116: 13650–13653. 
  3. Ke Sun†, Wei Wei†, Yong Ding, Yi Jing, Zhong Lin Wang, Deli Wang*   Crystalline ZnO thin film by hydrothermal growth Chemical Communications, 2011; 47: 7776-7778;(†: co-first authors). 
  4. Wei Wei, Xin-Yu Bao, Cesare Soci, Yong Ding, Zhong-Lin Wang, Deli Wang*   Direct heteroepitaxy of vertical InAs nanowires on Si substrates for broad band photovoltaics and photodetection Nano Letters, 2009; 8: 2926-2934. 
  5. Xin-Yu Bao, Cesare Soci, Darija Susac, Jon Bratvold, David PR Aplin, Wei Wei, Ching-Yang Chen, Shadi A Dayeh, Karen L Kavanagh, Deli Wang*   Heteroepitaxial growth of vertical GaAs nanowires on Si (111) substrates by metal− organic chemical vapor deposition Nano Letters, 2008; 8: 3755–3760. 
  6. Yang Wei, Wei Wei, Liang Liu, Shoushan Fan*   Mounting multi-walled carbon nanotubes on probes by dielectrophoresis Diamond and Related Materials, 2008; 17: 1877-1880. 
  7. Wei Wei, Yang Liu, Yang Wei, Kaili Jiang*, Lian-Mao Peng*, Shoushan Fan*   Tip cooling effect and failure mechanism of field-emitting carbon nanotubes Nano Letters, 2007; 7: 64-68. 
  8. Wei Wei, Kaili Jiang*, Yang Wei, Peng Liu, Kai Liu, Lina Zhang, Qunqing Li, Shoushan Fan*   LaB 6 tip-modified multiwalled carbon nanotube as high quality field emission electron source Applied Physics Letters, 2006; 89: 203112. 
  9. Wei Wei, Kaili Jiang*, Yang Wei, Ming Liu, Haitao Yang, Lina Zhang, Qunqing Li, Liang Liu, Shoushan Fan*   Measuring the stress in field-emitting carbon nanotubes Nanotechnology, 2006; 17: 1994-1998. 
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