*Co-first authors; *Co-senior/corresponding authors


A. Thakur*, P. Bezerra, M. S. Durkee, K. Zhang, B. Duan, W. Treptow, J. Huang*, Chen HJ.* . Identification of Nanoparticles and Extracellular Vesicles by Quantum Machine Learning Based Electrokinetic Mining with Fewer Observations. (Submitted)

Thakur A*, Mei S*, Zhang K, Wu S,… Chen HJ. * Bridging the Lung and Brain – the roles of Neuroendocrine Pulmonary Cells in the Lung.  (Submitted)

Keskey R, Xiao J, Hyoju S, Lam A, Kim K, Sidebottom A, Zaborin A, Dijkstra A, Meltzer R, Thakur A, Zhang K, Chen HJ, Thewissen R, Zaborina O, Alverdy J. Pathogen subversion of indole-mediated activation of the aryl hydrocarbon receptor and survival following lethal peritoneal infection. (Submitted)

Chen HJ.* Gardner E., Shah Y., Zhang K, Thakur A., Zhang C., Elemento O., Varmus H.,*. Formation of malignant, metastatic small cell lung cancers through overproduction of cMYC protein in TP53 and RB1 depleted pulmonary neuroendocrine cells derived from human embryonic stem cells. eLife.  2024


Thakur A*, Wei Z*. Chen HJ*. Extracellular vesicles and cell-cell communication in normal cellular processes and cancer. Frontiers Molecular Biosciences. 2023. 10, 2023. (Editorial Article)

A Iyaswamy*, A Thakur*, X Guan, T Fung, S Krishnamoorthi, I Gaurav, X Wang, Z Yang, K Lau, M Wong, K Zhang, Q Lian, R NG, HJ Chen*, M Li*. Fe65 Engineered Neuronal Exosomes Encapsulating Corynoxine-B Ameliorate Cognition and Pathogenesis of Alzheimer’s Disease. (co-corresponding author).  Signal Transduction and Targeted Therapy. 2023. 8. 404.


T Kodama, M Kodama, N. Jenkins, N. Copeland, HJ Chen, and Z Wei. Ring Finger Protein 125 Is an Anti-Proliferative Tumor Suppressor in Hepatocellular Carcinoma. Cancers 2022. 14, 2589.

Lian QZ.*Zhang K, Zhang Z, Duan FY, Guo L, Yang L., …Chen ZW., Chen Y., Chen HJ* Differential Effects of Macrophage Subtypes on SARS-CoV-2 Infection in A Human Pluripotent Stem Cell-Derived Model. Nature Communications. 2022. 13: 2028. DOI: 10.1038/s41467-022-29731-5

Thakur A, Johnson A, Jacobs E, Zhang K, Chen J, Wei Z, Lian QZ*, Chen HJ* Energy Sources for Exosome Communications in Cancer Microenvironment. Cancers. 2022. 14. 1698

Ke X, Thakur A, Chen HJ* Transdifferentiation Meets Next-generation Biotechnologies. StemJournal. 2022 vol. 4, no. 1, pp. 1-11.

Thakur A, Parra D, Motallebnejad P, Brocchi M, Chen HJ*. Exosomes: Small Vesicles with Big Roles in Cancer, Vaccine Development, and Therapeutic. Bioactive Materials. 2022. 10. 281-294


Ma CY, Li C, Zhou X, Zhang Z, Jiang H, Liu HS, Chen HJ, Tse H, Liao C, Lian QZ. Management of adrenoleukodystrophy: From pre-clinical studies to the development of new therapies. Biomedicine & Pharmacotherapy. 2021. 143, 112214.

Thakur A, Ke X, Chen YW, Lian Q*, Chen HJ.* The mini player with diverse functions: extracellular vesicles in stem cell communication, cancer and therapeutics. Protein & Cell. 2021 DOI:10.1007/s13238-021-00863-6

Han YL, Yang L, Duan XH, Duan FY, Nilsson-Payant B., …. Chen HJ.* Schwartz R.* Chen SB.* Identification of SARS-CoV-2 Inhibitors using Lung and Colonic Organoids. Nature. 2021. 589. 270-275 (co-corresponding author). 

Zhang Z, Guo L, Lu X, Ma CY, Zhang C, Wang XF, Huang L, Liang H, Shao J, Zeng L, Duan F, Li H, Li Le, Li Liu, Chen Pk, Li Cheng, Zhang J, Luo R, Kwan KY, Liu W, Xu Yi, Gu X, Jiang H, Du H, Zhang T, Wu Y, Yu G, Chen J, Liao C, Tse H, Chen ZW, and Chen HJ.* Xia H. * Zhou QZ.* Clinical analysis and pluripotent stem cell-based model reveal possible impacts of ACE2 and lung progenitor cells on infants vulnerable to COVID-19. Theranostics 2021; 11(5):2170-2181. (co-corresponding author)

Zhang Z, Guo L, Li H, Zhang C, Luo R, Chen H.J. , Chen Z., Tse H.*, Xia H.*, Lian Q* Distinct disease severity between children and older adults with COVID-19: Impacts of ACE2 distribution and lung progenitor cells. Clinical Infectious Diseases. 2021 Jan 3; 1911.


Yang, L., Han YL, et., al. A human pluripotent stem cell-based platform to study SARS-CoV-2 tropism and model virus infection in human cells and organoids. Cell Stem Cell, 2020 doi: 10.1016/j.stem.2020.06.015

Poirier, JT., George, J., Owonikoko, TK., Berns, A., Brambilla, E., Byers, L., Carbone, D., Chen, HJ., al. New approaches to small cell lung cancer therapy: from the laboratory to the clinic. Journal of Thoracic Oncology, 2020. Volume 15, Issue 4, April 2020, Pages 520-540

Tian, L, Gao, JH, Garcia1, IM, Chen, HJ., Castaldi, A Chen, YW. Human pluripotent stem cell-derived lung organoids and disease modeling. WIREs developmental biology, 2020, Nov. 3. https://doi.org/10.1002/wdev.399


Chen, HJ.*, Paron, A.*, Unni, A., Huang, XL., Elemento, O., Snoeck, H., Varmus, H., Generation of pulmonary neuroendocrine cells and SCLC-like tumors from human embryonic stem cells  Journal of Experimental Medicine, 2019, 216 (3): 674. (Highlighted by JEM insights, “small cell lung cancers made from scratch”)


Chen, HJ. *, Miller, P. *, Shuler, M.L., A Pumpless Body-on-a-chip Model Using Primary Culture of human Intestinal Cells and 3D Culture of Liver Cells. Lab on a Chip, (2018), 18(14):2036-2046. (cover article)

Chen, HJ., Shuler, M.L., Engineering a Bioartificial Human Colon Model Through Decellularization and Recellularization. Cancer Driver Genes. for the book series of Methods Molecular Biology, (2018). Vol. 1907, ISBN: 978-1-4939-8966-9. Springer Nature


Crespo, M., Vilar, E., Tsai, SY., Chang, K., Amin, S., Chen, HJ., Witherspoon, M., Maxfield, FR., Lipkin, S., Evans, T., Chen, SB. Colonic Organoids Derived from Human Pluripotent Stem Cells for Modeling Colorectal Cancer and Drug Testing. Nature Medicine, (2017) 23(7):878-884


Chen, HJ.*, Wei, Z. *, Sun J., Savage, D., Curley, S., Serda, R., Copeland, N.G., Jenkins, N.A. , Shuler, M.L. , A recellularized human colon model identifies cancer driver genes. Nature Biotechnology, (2016) 34(8):845-51. (article) (article featured in Nature Reviews Gastroenterology & Hepatology, and in Cornell Chronicle)

Dickson, I., (drafted by Chen, HJ., and Wei, Z.,) Engineered Colons for cancer research. Nature Reviews Gastroenterology & Hepatology, (2016) 13, 500. (report on the above work of the recellularized colon model)

Chen, HJ., Wei, Z., Advancements in Modeling Colorectal Cancer in Rodents. Current Colorectal Cancer Reports (2016) 12 (5): 274–280

Wang, L, Bu, P, Ai, Y, Srinivasan, T, Chen, HJ, Xiang, K, Lipkin, SM, and Shen, X.  A long non-coding RNA targets microRNA miR-34a to regulate colon cancer stem cell, asymmetric divisioneLife (2016):5: e14620

Bu, P., Wang, L., Chen, KY., Srinivasan, T., Murthy, PK., Tung, KL., Chen, HJ., Ai, Y., King, S., Lipkin, SM., Shen, X., A miR-34a-Numb Feedforward Loop Triggered by Inflammation Regulates Asymmetric Stem Cell Division in Intestine and Colon Cancer. Cell Stem Cell. (2016) 18(2):189-202


Chen, HJ., Sun, J., Huang, Z., Hou, H., Arcilla, M., Rakhilin, N., Joe, D., Choi, J., Gadamsetty, P., Milsom, J., Nandakumar, G., Longman, R., Zhou, X. K., Edwards, R., Chen J., Chen K. Y., Bu, P., Wang, L., Xu, Y., Munroe, R., Abratte, C., Miller, A. D., Gümüş, Z. H., Shuler, M., Nishimura, N., Edelmann, W., Shen, X., and Lipkin, S., M. Comprehensive models of human primary and metastatic colorectal tumors in immunodeficient and immunocompetent mice by chemokine targeting. Nature Biotechnology, (2015) 33, 656-660. (letters) (article featured in Nature, and in Cornell Chronicle)

Bu, P., Wang, L., Chen, KY., Sun, J., Chen, HJ., Witherspoon, M., Rakhilin, N., Gümüş, ZH., Lipkin, SM., Shen, X. miR-1269 Promotes Metastasis and forms a Positive Feedback Loop with TGF-b. Nature Communications. (2015) 6:6879


Schuessler, T., Chan, XY., Chen,HJ., Ji, K., Park, KM., Roshan-Ghias, A., Sethi, P., Thakur, A., Tian, X., Villasante, A., Zervantonakis, I., Moore, N., Nagahara, L., and Kuhn, N., Biomimetic Tissue-Engineered Systems for Advancing Cancer Research: NCI Strategic Workshop Report. Cancer Research. (2014)74(19); 1–5. (authors by alphabetical order)


Bu, P., Chen, KY., Chen, HJ., Wang, L., Walters, J., Shin, YJ., Goerger, JP., Sun, J., Witherspoon, M., Rakhilin, N., Li, J., Yang, H., Milsom, J., Lee, S., Zipfel, W., Jin, MM., Gümüş, ZH., Lipkin, SM., Shen, X. A microRNA miR-34a-regulated bimodal switch targets notch in colon cancer stem cells. Cell Stem Cell. (2013) 2;12(5):602-15.


Chen, HJ., Edwards, R., Tucci, S., Bu, P., Milsom, J., Lee, S., Edelmann, W., Gümüs, ZH., Shen, X., Lipkin, SM., The chemokine receptor 9-chemokine 25 axis suppresses colon cancer invasion and metastasis. Journal of Clinical Investigation. (2012) 122(9):3184–3196. (article featured in Nature-Sciexchange, in Qiagen company blog and in Cornell Chronicle)

Print Friendly, PDF & Email