headshot

Yu Chih Chen

Assistant Professor
Lab Website Google Scholar Bioengineering Department

overview

Yu-Chih Chen received his dual bachelor degrees in Electrical Engineering and Law from the National Taiwan University, Taipei in 2008, his Ph.D. degree in Electrical & Computer Engineering at the University of Michigan, Ann Arbor in 2014, where he continued to work as a research faculty in both Electrical & Computer Engineering Department and Forbes Institute for Cancer Discovery. He is currently an assistant professor in the Department of Computational and Systems Biology and UPMC Hillman Cancer Center at the ​University of Pittsburgh School of Medicine. He is also affiliated with Joint CMU-Pitt Ph.D. Program in Computational Biology. He is the recipient of Taiwan Semiconductor Manufacturing Company (TSMC) Outstanding Student Research Award (2008), Orenstein Ph.D. Fellowship (2009), Best Post-Doctoral Speaker Award in Microfluidics in Biomedical Sciences Training Program, UMich (2015), and Emerging Forbes Scholar selected by Forbes Institute for Cancer Discovery (2017). His current research focuses on high-throughput single-cell analysis, next generation sequencing (NGS), and machine learning for cancer precision medicine.

about

Bachelor, Electrical Engineering, National Taiwan University, 2003 - 2008

Bachelor, Law, National Taiwan University, 2003 - 2008

Master, Electrical Engineering and Computer Science, University of Michigan–Ann Arbor, 2009 - 2012

PhD, Electrical Engineering and Computer Science, University of Michigan–Ann Arbor, 2009 - 2014

Chen, Y.C., Zhang, Z., & Yoon, E. (2020). Early Prediction of Single-Cell Derived Sphere Formation Rate Using Convolutional Neural Network Image Analysis. Analytical Chemistry, 92(11), 7717-7724.American Chemical Society (ACS). doi: 10.1021/acs.analchem.0c00710.

Humphries, B.A., Cutter, A.C., Buschhaus, J.M., Chen, Y.C., Qyli, T., Palagama, D.S.W., Eckley, S., Robison, T.H., Bevoor, A., Chiang, B., Haley, H.R., Sahoo, S., Spinosa, P.C., Neale, D.B., Boppisetti, J., Sahoo, D., Ghosh, P., Lahann, J., Ross, B.D., Yoon, E., Luker, K.E., & Luker, G.D. (2020). Enhanced mitochondrial fission suppresses signaling and metastasis in triple-negative breast cancer. Breast Cancer Research, 22(1).Springer Science and Business Media LLC. doi: 10.1186/s13058-020-01301-x.

Park, S.R., Namkoong, S., Friesen, L., Cho, C.S., Zhang, Z.Z., Chen, Y.C., Yoon, E., Kim, C.H., Kwak, H., Kang, H.M., & Lee, J.H. (2020). Single-Cell Transcriptome Analysis of Colon Cancer Cell Response to 5-Fluorouracil-Induced DNA Damage. Cell Reports, 32(8), 108077.Elsevier BV. doi: 10.1016/j.celrep.2020.108077.

Chen, Y.C., Gonzalez, M.E., Burman, B., Zhao, X., Anwar, T., Tran, M., Medhora, N., Hiziroglu, A.B., Lee, W., Cheng, Y.H., Choi, Y., Yoon, E., & Kleer, C.G. (2019). Mesenchymal Stem/Stromal Cell Engulfment Reveals Metastatic Advantage in Breast Cancer. Cell Reports, 27(13), 3916-3926.e5.Elsevier BV. doi: 10.1016/j.celrep.2019.05.084.

Chen, Y.C., Jung, S., Zhang, Z., Wicha, M.S., & Yoon, E. (2019). Co-culture of functionally enriched cancer stem-like cells and cancer-associated fibroblasts for single-cell whole transcriptome analysis. Integrative Biology, 11(9), 353-361.Oxford University Press (OUP). doi: 10.1093/intbio/zyz029.

Cheng, Y.H., Chen, Y.C., Lin, E., Brien, R., Jung, S., Chen, Y.T., Lee, W., Hao, Z., Sahoo, S., Min Kang, H., Cong, J., Burness, M., Nagrath, S., S. Wicha, M., & Yoon, E. (2019). Hydro-Seq enables contamination-free high-throughput single-cell RNA-sequencing for circulating tumor cells. Nature Communications, 10(1).Springer Science and Business Media LLC. doi: 10.1038/s41467-019-10122-2.

Zhang, Z., Chen, L., Wang, Y., Zhang, T., Chen, Y.C., & Yoon, E. (2019). Label-Free Estimation of Therapeutic Efficacy on 3D Cancer Spheres Using Convolutional Neural Network Image Analysis. Analytical Chemistry, 91(21), 14093-14100.American Chemical Society (ACS). doi: 10.1021/acs.analchem.9b03896.

Anwar, T., Arellano-Garcia, C., Ropa, J., Chen, Y.C., Kim, H.S., Yoon, E., Grigsby, S., Basrur, V., Nesvizhskii, A.I., Muntean, A., Gonzalez, M.E., Kidwell, K.M., Nikolovska-Coleska, Z., & Kleer, C.G. (2018). p38-mediated phosphorylation at T367 induces EZH2 cytoplasmic localization to promote breast cancer metastasis. Nature Communications, 9(1).Springer Science and Business Media LLC. doi: 10.1038/s41467-018-05078-8.

Chen, Y.C., Humphries, B., Brien, R., Gibbons, A.E., Chen, Y.T., Qyli, T., Haley, H.R., Pirone, M.E., Chiang, B., Xiao, A., Cheng, Y.H., Luan, Y., Zhang, Z., Cong, J., Luker, K.E., Luker, G.D., & Yoon, E. (2018). Functional Isolation of Tumor-Initiating Cells using Microfluidic-Based Migration Identifies Phosphatidylserine Decarboxylase as a Key Regulator. Scientific Reports, 8(1).Springer Science and Business Media LLC. doi: 10.1038/s41598-017-18610-5.

Menon, R., Otto, E.A., Kokoruda, A., Zhou, J., Zhang, Z., Yoon, E., Chen, Y.C., Troyanskaya, O., Spence, J.R., Kretzler, M., & Cebrián, C. (2018). Single-cell analysis of progenitor cell dynamics and lineage specification in the human fetal kidney. Development, 145(16).The Company of Biologists. doi: 10.1242/dev.164038.

Zhang, Z., Chen, Y.C., Urs, S., Chen, L., Simeone, D.M., & Yoon, E. (2018). Scalable Multiplexed Drug-Combination Screening Platforms Using 3D Microtumor Model for Precision Medicine. Small, 14(42), 1703617.Wiley. doi: 10.1002/smll.201703617.

Chen, Y.C., Baac, H.W., Lee, K.T., Fouladdel, S., Teichert, K., Ok, J.G., Cheng, Y.H., Ingram, P.N., Hart, A.J., Azizi, E., Guo, L.J., Wicha, M.S., & Yoon, E. (2017). Selective Photomechanical Detachment and Retrieval of Divided Sister Cells from Enclosed Microfluidics for Downstream Analyses. ACS Nano, 11(5), 4660-4668.American Chemical Society (ACS). doi: 10.1021/acsnano.7b00413.

Gonzalez, M.E., Martin, E.E., Anwar, T., Arellano-Garcia, C., Medhora, N., Lama, A., Chen, Y.C., Tanager, K.S., Yoon, E., Kidwell, K.M., Ge, C., Franceschi, R.T., & Kleer, C.G. (2017). Mesenchymal Stem Cell-Induced DDR2 Mediates Stromal-Breast Cancer Interactions and Metastasis Growth. Cell Rep, 18(5), 1215-1228.Elsevier BV. doi: 10.1016/j.celrep.2016.12.079.

Kim, H.S., Chen, Y.C., Nör, F., Warner, K.A., Andrews, A., Wagner, V.P., Zhang, Z., Zhang, Z., Martins, M.D., Pearson, A.T., Yoon, E., & Nör, J.E. (2017). Endothelial-derived interleukin-6 induces cancer stem cell motility by generating a chemotactic gradient towards blood vessels. Oncotarget, 8(59), 100339-100352.Impact Journals, LLC. doi: 10.18632/oncotarget.22225.

Allen, S.G., Chen, Y.C., Madden, J.M., Fournier, C.L., Altemus, M.A., Hiziroglu, A.B., Cheng, Y.H., Wu, Z.F., Bao, L., Yates, J.A., Yoon, E., & Merajver, S.D. (2016). Macrophages Enhance Migration in Inflammatory Breast Cancer Cells via RhoC GTPase Signaling. Scientific Reports, 6(1).Springer Science and Business Media LLC. doi: 10.1038/srep39190.

Bai, S., Ingram, P., Chen, Y.C., Deng, N., Pearson, A., Niknafs, Y., O'Hayer, P., Wang, Y., Zhang, Z.Y., Boscolo, E., Bischoff, J., Yoon, E., & Buckanovich, R.J. (2016). EGFL6 Regulates the Asymmetric Division, Maintenance, and Metastasis of ALDH(+) Ovarian Cancer Cells. CANCER RESEARCH, 76(21), 6396-6409.American Association for Cancer Research (AACR). doi: 10.1158/0008-5472.CAN-16-0225.

Chen, Y.C., Cheng, Y.H., Ingram, P., & Yoon, E. (2016). Single Cell Proteolytic Assays to Investigate Cancer Clonal Heterogeneity and Cell Dynamics Using an Efficient Cell Loading Scheme. Scientific Reports, 6(1).Springer Science and Business Media LLC. doi: 10.1038/srep27154.

Chen, Y.C., Ingram, P.N., Fouladdel, S., McDermott, S.P., Azizi, E., Wicha, M.S., & Yoon, E. (2016). High-Throughput Single-Cell Derived Sphere Formation for Cancer Stem-Like Cell Identification and Analysis. Scientific Reports, 6(1).Springer Science and Business Media LLC. doi: 10.1038/srep27301.

Burgos-Ojeda, D., Wu, R., McLean, K., Chen, Y.C., Talpaz, M., Yoon, E., Cho, K.R., & Buckanovich, R.J. (2015). CD24(+) Ovarian Cancer Cells Are Enriched for Cancer-Initiating Cells and Dependent on JAK2 Signaling for Growth and Metastasis. MOLECULAR CANCER THERAPEUTICS, 14(7), 1717-1727.American Association for Cancer Research (AACR). doi: 10.1158/1535-7163.MCT-14-0607.

Chen, Y.C., Allen, S.G., Ingram, P.N., Buckanovich, R., Merajver, S.D., & Yoon, E. (2015). Single-cell Migration Chip for Chemotaxis-based Microfluidic Selection of Heterogeneous Cell Populations. Scientific Reports, 5(1).Springer Science and Business Media LLC. doi: 10.1038/srep09980.

Chen, Y.C., Kang, T.H., Ingram, P.N., Cheng, Y.H., & Yoon, E. (2015). Osmotically Actuated Micropumps and Control Valves for Point-of-Care Applications. Journal of Microelectromechanical Systems, 24(4), 982-989.Institute of Electrical and Electronics Engineers (IEEE). doi: 10.1109/jmems.2014.2364051.

Chen, Y.C., Lou, X., Zhang, Z., Ingram, P., & Yoon, E. (2015). High-Throughput Cancer Cell Sphere Formation for Characterizing the Efficacy of Photo Dynamic Therapy in 3D Cell Cultures. Scientific Reports, 5(1).Springer Science and Business Media LLC. doi: 10.1038/srep12175.

Yoon, H.K., Lou, X., Chen, Y.C., Koo Lee, Y.E., Yoon, E., & Kopelman, R. (2014). Nanophotosensitizers Engineered to Generate a Tunable Mix of Reactive Oxygen Species, for Optimizing Photodynamic Therapy, Using a Microfluidic Device. Chemistry of Materials, 26(4), 1592-1600.American Chemical Society (ACS). doi: 10.1021/cm403505s.

Baac, H.W., Ok, J.G., Maxwell, A., Lee, K.T., Chen, Y.C., Hart, A.J., Xu, Z., Yoon, E., & Guo, L.J. (2012). Carbon-Nanotube Optoacoustic Lens for Focused Ultrasound Generation and High-Precision Targeted Therapy. Scientific Reports, 2(1).Springer Science and Business Media LLC. doi: 10.1038/srep00989.

Chen, Y.C., Cheng, Y.H., Kim, H.S., Ingram, P.N., Nor, J.E., & Yoon, E. Paired single cell co-culture microenvironments isolated by two-phase flow with continuous nutrient renewal. Lab Chip, 14(16), 2941-2947.Royal Society of Chemistry (RSC). doi: 10.1039/c4lc00391h.

Chen, Y.C., Ingram, P., & Yoon, E. Electrolytic valving isolation of cell co-culture microenvironment with controlled cell pairing ratios. The Analyst, 139(24), 6371-6378.Royal Society of Chemistry (RSC). doi: 10.1039/c4an01282h.

Chen, Y.C., Zhang, Z., Fouladdel, S., Deol, Y., Ingram, P.N., McDermott, S.P., Azizi, E., Wicha, M.S., & Yoon, E. Single cell dual adherent-suspension co-culture micro-environment for studying tumor–stromal interactions with functionally selected cancer stem-like cells. Lab on a Chip, 16(15), 2935-2945.Royal Society of Chemistry (RSC). doi: 10.1039/c6lc00062b.

Cheng, Y.H., Chen, Y.C., Brien, R., & Yoon, E. Scaling and automation of a high-throughput single-cell-derived tumor sphere assay chip. Lab on a Chip, 16(19), 3708-3717.Royal Society of Chemistry (RSC). doi: 10.1039/c6lc00778c.

Humphries, B.A., Buschhaus, J.M., Chen, Y.C., Haley, H.R., Qyli, T., Chiang, B., Shen, N., Rajendran, S., Cutter, A., Cheng, Y.H., Chen, Y.T., Cong, J., Spinosa, P.C., Yoon, E., Luker, K.E., & Luker, G.D. Plasminogen activator inhibitor 1 (PAI1) promotes actin cytoskeleton reorganization and glycolytic metabolism in triple negative breast cancer. Molecular Cancer Research, molcanres.0836.2018.American Association for Cancer Research (AACR). doi: 10.1158/1541-7786.mcr-18-0836.

Zhang, Z., Chen, L., Humphries, B., Brien, R., Wicha, M.S., Luker, K.E., Luker, G.D., Chen, Y.C., & Yoon, E. Morphology-based prediction of cancer cell migration using an artificial neural network and a random decision forest. Integrative Biology, 10(12), 758-767.Oxford University Press (OUP). doi: 10.1039/c8ib00106e.

Zhang, Z., Chen, Y.C., Cheng, Y.H., Luan, Y., & Yoon, E. Microfluidics 3D gel-island chip for single cell isolation and lineage-dependent drug responses study. Lab on a Chip, 16(13), 2504-2512.Royal Society of Chemistry (RSC). doi: 10.1039/c6lc00081a.