Ya-Wen Chen

Title(s)Assistant Professor of Medicine
Address2020 Zonal Avenue
Off Campus
Los Angeles CA 90033
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    Collapse Biography 
    Collapse Education and Training
    Columbia University Medical Center, New YorkPostdoctoral Training12/2018Stem Cell Biology, Pulmonary
    University of Maryland, Baltimore, BaltimorePh.D.07/2012Molecular Medicine
    Georgetown University, Washington DCM.S.05/2007Tumor Biology
    Tunghai University, Taichung, TaiwanB.S.06/2003Biology
    Collapse Awards and Honors
    Francis Family Foundation2018Parker B. Francis Fellowship
    International Society for Stem Cell Research2017Travel Award
    NHLBI Progenitor Cell Biology Consortium2017Training Award-human pluripotent stem cell biology and gene editing
    NHLBI Progenitor Cell Biology Consortium2017Training Award-Multiplexed in situ hybridzation
    International Society for Stem Cell Research2015Travel Award
    Columbia University Medical Center2015Samuel Bard Young Investigator Awards
    Journal of Investigative Dermatology2014Profile December: Meet the Investigator
    University of Maryland, Baltimore2010Travel Award
    Gordon Research Conference2010Winner of Biochemical Journal Poster Prize
    Gordon Research Conference20102nd place, Student Category of Plasminogen Activation & Extracellular Proteolysis
    Taiwan1999Masterpiece of Biology of National Science & Experiment Competition
    Asia-Pacific Economic Cooperation (APEC)1998Young Scientist Award of the 1st APEC Youth Science Festival
    Taiwan1998The third Award of the 38th National Private and high schools Science Fair
    Donald E. and Delia B. Baxter Foundation2020Baxter Foundation Faculty Fellow

    Collapse Overview 
    Collapse Overview
    Currently, the only way to replace lung tissue is to perform lung transplantation, which is an complicate procedure that achieves only 10 to 20% survival at 10 years and is hampered by a severe shortage of donor organs. The ability to reconstruct lung tissue from hPSCs would fundamentally change the outlook of pulmonary medicine. In vitro generated lung tissue could be used for regenerative purposes. Alternatively, postnatal lung stem cells could be generated in sufficient quantities from hPSCs and used for stem-cell therapies and regenerative medicine. Over the past few years, lung progenitor populations have been identified in mouse models. It has become clear that many types of differentiated epithelial cells in the lung, such as club and ATII cells, can function as stem cells in steady state and following injury. Our research interests are applying human pluripotent stem cells (hPSCs, including embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs)) as a model to study the mechanisms of lung injury repair and ultimately apply the hPSC-derived lung stem/progenitor or mature airway/lung epithelial cells to facilitate lung injury repair, stem-cell therapy, and regenerative medicine.

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    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Modeling of Fibrotic Lung Disease Using 3D Organoids Derived from Human Pluripotent Stem Cells. Cell Rep. 2019 06 18; 27(12):3709-3723.e5. Strikoudis A, Cieslak A, Loffredo L, Chen YW, Patel N, Saqi A, Lederer DJ, Snoeck HW. PMID: 31216486.
      View in: PubMed   Mentions: 3     Fields:    
    2. Authentic Modeling of Human Respiratory Virus Infection in Human Pluripotent Stem Cell-Derived Lung Organoids. mBio. 2019 05 07; 10(3). Porotto M, Ferren M, Chen YW, Siu Y, Makhsous N, Rima B, Briese T, Greninger AL, Snoeck HW, Moscona A. PMID: 31064833.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    3. Glycogen synthase kinase 3 induces multilineage maturation of human pluripotent stem cell-derived lung progenitors in 3D culture. Development. 2019 01 22; 146(2). de Carvalho ALRT, Strikoudis A, Liu HY, Chen YW, Dantas TJ, Vallee RB, Correia-Pinto J, Snoeck HW. PMID: 30578291.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCells
    4. Guided bone regeneration activity of different calcium phosphate/chitosan hybrid membranes. Int J Biol Macromol. 2019 Apr 01; 126:159-169. Chen YH, Tai HY, Fu E, Don TM. PMID: 30586584.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    5. New insights and therapeutic targets: Lung injury and disease. J Thorac Cardiovasc Surg. 2019 01; 157(1):416-420. Guenthart BA, Chen YW, Bacchetta M. PMID: 30557958.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    6. Embryonic exposure to 4-methylimidazole leads to zebrafish myofibril misalignment. Environ Toxicol. 2018 Dec; 33(12):1321-1328. Tsai JN, Sun CY, Ding YJ, Wang YH, Lo KC, Wen CC, Lin JW, Chang CF, Hsu LS, Chen HM, Fong TH, Chen YH. PMID: 30259639.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    7. 3D Modeling of Esophageal Development using Human PSC-Derived Basal Progenitors Reveals a Critical Role for Notch Signaling. Cell Stem Cell. 2018 10 04; 23(4):516-529.e5. Zhang Y, Yang Y, Jiang M, Huang SX, Zhang W, Al Alam D, Danopoulos S, Mori M, Chen YW, Balasubramanian R, Chuva de Sousa Lopes SM, Serra C, Bialecka M, Kim E, Lin S, Toste de Carvalho ALR, Riccio PN, Cardoso WV, Zhang X, Snoeck HW, Que J. PMID: 30244870.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCells
    8. Porcine epidemic diarrhea virus papain-like protease 2 can be noncompetitively inhibited by 6-thioguanine. Antiviral Res. 2018 10; 158:199-205. Chu HF, Chen CC, Moses DC, Chen YH, Lin CH, Tsai YC, Chou CY. PMID: 30138642.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    9. Disulfiram can inhibit MERS and SARS coronavirus papain-like proteases via different modes. Antiviral Res. 2018 02; 150:155-163. Lin MH, Moses DC, Hsieh CH, Cheng SC, Chen YH, Sun CY, Chou CY. PMID: 29289665.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    10. Functional vascularized lung grafts for lung bioengineering. Sci Adv. 2017 08; 3(8):e1700521. Dorrello NV, Guenthart BA, O'Neill JD, Kim J, Cunningham K, Chen YW, Biscotti M, Swayne T, Wobma HM, Huang SXL, Snoeck HW, Bacchetta M, Vunjak-Novakovic G. PMID: 28875163.
      View in: PubMed   Mentions: 8     Fields:    Translation:AnimalsCells
    11. Teratogenic Effects of Topiramate in a Zebrafish Model. Int J Mol Sci. 2017 Aug 07; 18(8). Lai YH, Ding YJ, Moses D, Chen YH. PMID: 28783116.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    12. A three-dimensional model of human lung development and disease from pluripotent stem cells. Nat Cell Biol. 2017 May; 19(5):542-549. Chen YW, Huang SX, de Carvalho ALRT, Ho SH, Islam MN, Volpi S, Notarangelo LD, Ciancanelli M, Casanova JL, Bhattacharya J, Liang AF, Palermo LM, Porotto M, Moscona A, Snoeck HW. PMID: 28436965.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansAnimalsCells
    13. Cross-circulation for extracorporeal support and recovery of the lung. Nature Biomedical Engineering. 2017. O’Neill, J. D., Guenthart, B. A., Kim, J., Chicotka, S., Queen, D., Fung, K., Marboe, C., Romanov, A., Huang, S. X. L., Chen, Y.-W., Snoeck, H.-W., Bacchetta, M., & Vunjak-Novakovic, G.
    14. Generation of three-dimensional lung bud organoid and its derived branching colonies. Protocol Exchange. 2017. Chen, Y.-W., Ahmed, A., & Snoeck, H.-W.
    15. Plasminogen-Dependent Matriptase Activation Accelerates Plasmin Generation by Differentiating Primary Human Keratinocytes. J Invest Dermatol. 2016 06; 136(6):1210-1218. Chen YW, Yin S, Lai YJ, Johnson MD, Lin CY. PMID: 26872599.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    16. von Hippel-Lindau gene plays a role during zebrafish pronephros development. In Vitro Cell Dev Biol Anim. 2015 Nov; 51(10):1023-32. Chen YH, Chang CF, Lai YY, Sun CY, Ding YJ, Tsai JN. PMID: 26194803.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    17. Pro-Angiogenic Effects of Chalcone Derivatives in Zebrafish Embryos in Vivo. Molecules. 2015 Jul 09; 20(7):12512-24. Chen YH, Chang CY, Chang CF, Chen PC, Lee YT, Chern CY, Tsai JN. PMID: 26184137.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    18. Evaluation of the teratogenic effects of three traditional Chinese medicines, Si Jun Zi Tang, Liu Jun Zi Tang and Shenling Baizhu San, during zebrafish pronephros development. J Toxicol Pathol. 2015 Jul; 28(3):141-9. Ding YJ, Wang BC, Wen CC, Sun CY, Lee HH, Lee FP, Yang LL, Chen YH. PMID: 26441476.
      View in: PubMed   Mentions:
    19. The in vitro generation of lung and airway progenitor cells from human pluripotent stem cells. Nat Protoc. 2015 Mar; 10(3):413-25. Huang SX, Green MD, de Carvalho AT, Mumau M, Chen YW, D'Souza SL, Snoeck HW. PMID: 25654758.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansCells
    20. Nephroprotective role of resveratrol and ursolic Acid in aristolochic Acid intoxicated zebrafish. Toxins (Basel). 2015 Jan 13; 7(1):97-109. Ding YJ, Sun CY, Wen CC, Chen YH. PMID: 25590276.
      View in: PubMed   Mentions: 4     Fields:    Translation:AnimalsCells
    21. Perturbation of cytosolic calcium by 2-aminoethoxydiphenyl borate and caffeine affects zebrafish myofibril alignment. J Appl Toxicol. 2015 Mar; 35(3):287-94. Wu HJ, Fong TH, Chen SL, Wei JC, Wang IJ, Wen CC, Chang CY, Chen XG, Chen WY, Chen HM, Horng JL, Wang YH, Chen YH. PMID: 25186829.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    22. Overdose of D-serine Induces Movement Disorder and Neuromuscular Changes of Zebrafish Larvae. J Toxicol Pathol. 2014 Apr; 27(1):19-24. Chen XG, Wang YH, Wen CC, Chen YH. PMID: 24791063.
      View in: PubMed   Mentions:
    23. Toxicity assessments of chalcone and some synthetic chalcone analogues in a zebrafish model. Molecules. 2014 Jan 07; 19(1):641-50. Lee YT, Fong TH, Chen HM, Chang CY, Wang YH, Chern CY, Chen YH. PMID: 24402197.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    24. Efficient generation of lung and airway epithelial cells from human pluripotent stem cells. Nat Biotechnol. 2014 Jan; 32(1):84-91. Huang SX, Islam MN, O'Neill J, Hu Z, Yang YG, Chen YW, Mumau M, Green MD, Vunjak-Novakovic G, Bhattacharya J, Snoeck HW. PMID: 24291815.
      View in: PubMed   Mentions: 112     Fields:    Translation:HumansAnimalsCells
    25. Imbalanced matriptase pericellular proteolysis contributes to the pathogenesis of malignant B-cell lymphomas. Am J Pathol. 2013 Oct; 183(4):1306-17. Chou FP, Chen YW, Zhao XF, Xu-Monette ZY, Young KH, Gartenhaus RB, Wang JK, Kataoka H, Zuo AH, Barndt RJ, Johnson M, Lin CY. PMID: 24070417.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansAnimalsCells
    26. Matriptase expression and zymogen activation in human pilosebaceous unit. J Histochem Cytochem. 2014 Jan; 62(1):50-9. Wu BY, Lee SP, Hsiao HC, Chiu H, Chen CY, Yeo YH, Lee HS, Chen YW, Kaul M, Kataoka H, Johnson MD, Wang JK, Lin CY. PMID: 24004857.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCells
    27. Matriptase regulates proliferation and early, but not terminal, differentiation of human keratinocytes. J Invest Dermatol. 2014 Feb; 134(2):405-414. Chen YW, Wang JK, Chou FP, Wu BY, Hsiao HC, Chiu H, Xu Z, Baksh ANH, Shi G, Kaul M, Barndt R, Shanmugam VK, Johnson MD, Lin CY. PMID: 23900022.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    28. Antithrombin regulates matriptase activity involved in plasmin generation, syndecan shedding, and HGF activation in keratinocytes. PLoS One. 2013; 8(5):e62826. Chen YW, Xu Z, Baksh AN, Wang JK, Chen CY, Swanson R, Olson ST, Kataoka H, Johnson MD, Lin CY. PMID: 23675430.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    29. Evaluation of the anti-inflammatory effect of chalcone and chalcone analogues in a zebrafish model. Molecules. 2013 Feb 05; 18(2):2052-60. Chen YH, Wang WH, Wang YH, Lin ZY, Wen CC, Chern CY. PMID: 23385341.
      View in: PubMed   Mentions: 3     Fields:    Translation:Animals
    30. Handbook of Proteolytic Enzymes (Third edition). MS. 681|Matriptase. 2012. Lin, CY., Chen, YW., Xu, ZH., Johnson, MD.
    31. Developmental nephrotoxicity of aristolochic acid in a zebrafish model. Toxicol Appl Pharmacol. 2012 May 15; 261(1):59-65. Ding YJ, Chen YH. PMID: 22472514.
      View in: PubMed   Mentions: 16     Fields:    Translation:AnimalsCells
    32. Caffeine treatment disturbs the angiogenesis of zebrafish embryos. Drug Chem Toxicol. 2012 Oct; 35(4):361-5. Yeh CH, Liao YF, Chang CY, Tsai JN, Wang YH, Cheng CC, Wen CC, Chen YH. PMID: 22313413.
      View in: PubMed   Mentions: 7     Fields:    Translation:AnimalsCells
    33. Fin reduction is a novel and unexpected teratogenic effect of amikacin-treated zebrafish embryos. Toxicol Mech Methods. 2012 Feb; 22(2):151-8. Chen YH, Tsai IT, Wen CC, Wang YH, Cheng CC, Hu SC, Chen YH. PMID: 22242631.
      View in: PubMed   Mentions: 2     Fields:    Translation:Animals
    34. The transmembrane serine protease matriptase: implications for cellular biology and human diseases. J Med Sci. 2012. Chen, YW., Eckert, RL., Johnson, M., Lin, CY.
    35. Mechanisms for the control of matriptase activity in the absence of sufficient HAI-1. Am J Physiol Cell Physiol. 2012 Jan 15; 302(2):C453-62. Xu H, Xu Z, Tseng IC, Chou FP, Chen YW, Wang JK, Johnson MD, Kataoka H, Lin CY. PMID: 22031598.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansAnimalsCells
    36. Targeting zymogen activation to control the matriptase-prostasin proteolytic cascade. J Med Chem. 2011 Nov 10; 54(21):7567-78. Xu Z, Chen YW, Battu A, Wilder P, Weber D, Yu W, Mackerell AD, Chen LM, Chai KX, Johnson MD, Lin CY. PMID: 21966950.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    37. Analgesic and Antiinflammatory Activities of the Aqueous Extract from Plectranthus amboinicus (Lour.) Spreng. Both In Vitro and In Vivo. Evid Based Complement Alternat Med. 2012; 2012:508137. Chiu YJ, Huang TH, Chiu CS, Lu TC, Chen YW, Peng WH, Chen CY. PMID: 21915187.
      View in: PubMed   Mentions:
    38. Matriptase is inhibited by extravascular antithrombin in epithelial cells but not in most carcinoma cells. Am J Physiol Cell Physiol. 2011 Nov; 301(5):C1093-103. Chou FP, Xu H, Lee MS, Chen YW, Richards OX, Swanson R, Olson ST, Johnson MD, Lin CY. PMID: 21795523.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    39. Increased matriptase zymogen activation in inflammatory skin disorders. Am J Physiol Cell Physiol. 2011 Mar; 300(3):C406-15. Chen CJ, Wu BY, Tsao PI, Chen CY, Wu MH, Chan YL, Lee HS, Johnson MD, Eckert RL, Chen YW, Chou F, Wang JK, Lin CY. PMID: 21123732.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansCells
    40. Regulation of the matriptase-prostasin cell surface proteolytic cascade by hepatocyte growth factor activator inhibitor-1 during epidermal differentiation. J Biol Chem. 2010 Oct 08; 285(41):31755-62. Chen YW, Wang JK, Chou FP, Chen CY, Rorke EA, Chen LM, Chai KX, Eckert RL, Johnson MD, Lin CY. PMID: 20696767.
      View in: PubMed   Mentions: 31     Fields:    Translation:HumansAnimalsCells
    41. Type I transglutaminase accumulation in the endoplasmic reticulum may be an underlying cause of autosomal recessive congenital ichthyosis. J Biol Chem. 2010 Oct 08; 285(41):31634-46. Jiang H, Jans R, Xu W, Rorke EA, Lin CY, Chen YW, Fang S, Zhong Y, Eckert RL. PMID: 20663883.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    42. TMPRSS2, a serine protease expressed in the prostate on the apical surface of luminal epithelial cells and released into semen in prostasomes, is misregulated in prostate cancer cells. Am J Pathol. 2010 Jun; 176(6):2986-96. Chen YW, Lee MS, Lucht A, Chou FP, Huang W, Havighurst TC, Kim K, Wang JK, Antalis TM, Johnson MD, Lin CY. PMID: 20382709.
      View in: PubMed   Mentions: 18     Fields:    Translation:HumansAnimalsCells
    43. Polarized epithelial cells secrete matriptase as a consequence of zymogen activation and HAI-1-mediated inhibition. Am J Physiol Cell Physiol. 2009 Aug; 297(2):C459-70. Wang JK, Lee MS, Tseng IC, Chou FP, Chen YW, Fulton A, Lee HS, Chen CJ, Johnson MD, Lin CY. PMID: 19535514.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansAnimalsCells
    44. Zymogen activation, inhibition, and ectodomain shedding of matriptase. Front Biosci. 2008 Jan 01; 13:621-35. Lin CY, Tseng IC, Chou FP, Su SF, Chen YW, Johnson MD, Dickson RB. PMID: 17981575.
      View in: PubMed   Mentions: 29     Fields:    Translation:HumansAnimalsCells
    45. Treatment with sodium benzoate leads to malformation of zebrafish larvae. Neurotoxicol Teratol. 2007 Sep-Oct; 29(5):562-9. Tsay HJ, Wang YH, Chen WL, Huang MY, Chen YH. PMID: 17644306.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
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