Research Centers

Center for Engineering in Medicine

We are scientists, engineers and physicians who are bringing the cutting edge of technology to the forefront of biomedical research and the practice of medicine.

The Center for Engineering in Medicine

The Center for Engineering in Medicine (CEM) provides a unique environment in which scientific rigor, collaboration, training and technical innovation come together. This winning combination has allowed the CEM to develop a remarkable reputation within the academic and industrial communities, both as an outstanding training environment and as an exceedingly innovative and productive research organization.

Senior Investigators

  • Martin Yarmush, MD
  • Mehmet Toner, PhD
  • Ronald G. Tompkins, PhD


  • Marianna Bei, PhD
  • Korkut Uygun, PhD
  • Biju Parekkadan, PhD
  • John Levine, MD, PhD
  • Daniel Irimia, MD, PhD
  • Berk Usta, PhD
  • Rohit Jindal, PhD
  • Basak Uygun, PhD
  • Shannon Stott, PhD
  • David Yarmush, PhD



  • Biopreservation
  • Cell migration in disease
  • Cell sorting and cancer diagnosis
  • Global health
  • Molecular, cellular and nanoscale bioengineering
  • Neuroscience and behavior
  • Organ reengineering
  • Therapeutics and applied immunology

The CEM's power comes from its ability to define the frontiers of healthcare technologies and organize concerted efforts that push the envelope. Examples include creating integrated microsystems as diagnostic and therapeutic tools and development of computer models which describe biological processes using sophisticated mathematical techniques.

1. Patel S, King KR, Yarmush ML. DNA-triggered innate immune responses are propagated by gap junction communication. Proc Nat’l Acad Sci 2009; 106: 12867-12872.

2. Kidambi S, Yarmush RS, Novik E, Chao P, Yarmush ML, Nahmias Y. Oxygen-mediated enhancement of primary hepatocyte metabolism, functional polarization, gene expression and drug clearance. Proc Nat’l Acad Sci 2009; 106: 15714-15719.

3. Stott SL, Lee RJ, Nagrath S, Yu M, Miyamoto DT, Ulkus L, Inserra EJ, Ulman M, Springer S, Nakamura Z, Moore AL, Tsukrov DI, Kempner ME, Dahl DM, Iafrate AJ, Smith MR, Tompkins RG, Sequist LV, Toner M, Haber DA, Maheswaran S. Isolation and characterization of circulating tumor cells from patients with localized and metastatic prostate cancer. Science Transl Med 2010; 2: 25ra23

4. Uygun BE, Soto-Gutierrez A, Yagi H, Izamis ML, Guzzardi MA, Shulman C, Milwid J, Kobayashi N, Tilles AW, Berthiaume F, Hertl M, Nahmias Y, Yarmush ML, Uygun K. Organ reengineering through development of a transplantable recellularized liver graft using decellularized liver matrix. Nature Medicine 2010; 16: 814–820. PMCID: PMC2930603.

5. Kotz KT, Xiao W, Miller-Graziano C, Qian WJ, Russom A, Warner EA, Moldawer LL, De A, Bankey PE, Petritis BO, Camp DG 2nd, Rosenbach AE, Goverman J, Fagan SP, Brownstein BH, Irimia D, Xu W, Wilhelmy J, Mindrinos MN, Smith RD, Davis RW, Tompkins RG, Toner M. Clinical microfluidics for neutrophil genomics and proteomics. Nature Med 2010; 16: 1042-7.

6. Koria P, Yagi H, Megeed Z, Nahmias Y, Sheridan R, Yarmush ML. Self assembling elastin-growth factor chimeric nanoparticles for the treatment of chronic wounds. Proc Nat’l Acad Sci; 2011; 108: 1034-9. PMCID: PMC3024670.

7. Uygun BE, Yarmush ML, Uygun K. Application of whole-organ tissue engineering in hepatology. Nature Reviews Gastroenterol Hepatol 2012; 9: 738-744.

8. Aldridge BB, Fernandez-Suarez M, Heller D, Ambravaneswaran V, Irimia D, Toner M, Fortune SM. Asymmetry and aging of mycobacterial cells lead to variable growth and antibiotic susceptibility. Science 2012; 335: 100-4.

9. Lee J, Li M, Milwid J, Dunham J, Vinegoni C, Gorbatov R, Iwamoto Y, Wang F, Shen K, Hatfield K, Enger M, Shafiee S, McCormack E, Ebert BL, Weissleder R, Yarmush ML, Parekkadan B. Implantable microenvironments to attract hematopoietic stem/cancer cells. Proc Natl Acad Sci 2012; 109: 19638-43. PMCID: PMC3511730.

10. Li S, Chakraborty N, Borcar A, Menze MA, Toner M, Hand SC. Late embryogenesis abundant proteins protect human hepatoma cells during acute desiccation. Proc Natl Acad Sci 2012; 109: 20859-64.

11. Patel SJ, Milwid JM, King KR, Li M, Bohr S, Iracheta A, Vitalo A, Parekkadan B, Jindal R, Yarmush ML. Gap junction inhibition prevents drug-induced liver toxicity and fulminant hepatic failure. Nature Biotechnol 2012; 30: 179-83. PMCID: PMC3609650

12. Seok J, Warren HS, Cuenca AG, Mindrinos MN, Baker HV, Xu W, Richards DR, McDonald-Smith GP, Gao H, Hennessy L, Finnerty CC, López CM, Honari S, Moore EE, Minei JP, Cuschieri J, Bankey PE, Johnson JL, Sperry J, Nathens AB, Billiar TR, West MA, Jeschke MG, Klein MB, Gamelli RL, Gibran NS, Brownstein BH, Miller-Graziano C, Calvano SE, Mason PH, Cobb JP, Rahme LG, Lowry SF, Maier RV, Moldawer LL, Herndon DN, Davis RW, Xiao W, Tompkins RG. Genomic responses in mouse models poorly mimic human inflammatory diseases. Proc Natl Acad Sci 2013; 110: 3507-12.

13. Yu M, Bardia A, Wittner BS, Stott SL, Smas ME, Ting DT, Isakoff SJ, Ciciliano JC, Wells MN, Shah AM, Concannon KF, Donaldson MC, Sequist LV, Brachtel E, Sgroi D, Baselga J, Ramaswamy S, Toner M, Haber DA, Maheswaran S. Circulating breast tumor cells exhibit dynamic changes in epithelial and mesenchymal composition. Science 2013; 339: 580-4.

14. Bohr S, Patel SJ, Shen K, Brines M, Cerami A, Berthiaume F, Yarmush ML. Alternative erythropoietin-mediated signaling prevents secondary microvascular thrombosis and inflammation within cutaneous burns. Proc Nat’l Acad Sci 2013; 110: 3513-8. PMCID: PMC3587271.

15. Ozkumur E, Shah AM, Ciciliano JC, Emmink BL, Miyamoto DT, Brachtel E, Yu M, Chen PI, Morgan B, Trautwein J, Kimura A, Sengupta S, Stott SL, Karabacak NM, Barber TA, Walsh JR, Smith K, Spuhler PS, Sullivan JP, Lee RJ, Ting DT, Luo X, Shaw AT, Bardia A, Sequist LV, Louis DN, Maheswaran S, Kapur R, Haber DA, Toner M. Inertial focusing for tumor antigen-dependent and -independent sorting of rare circulating tumor cells. Science Transl Med 2013; 5: 179

16. Saeidi N, Meoli L, Kvas S, Kucharczyk J, Gupta NK, Nestoridi E, Bonab AA, Fischman AJ, Yarmush ML, Stylopoulos N. Intestinal metabolic reprogramming improves glycemic control by enhanced GLUT-1-dependent glucose uptake and utilization. Science 2013; 341: 406-10.

17. Usta OB, Kim Y, Ozer S, Bruinsma BG, Lee J, Demir E, Berendsen TA, Puts CF, Izamis ML, Uygun K, Uygun BE, Yarmush ML. Supercooling as a viable non-freezing cell preservation method of rat hepatocytes. PLoS One 2013; 8: e69334.

18. Karabacak NM, Spuhler PS, Fachin F, Lim EJ, Pai V, Ozkumur E, Martel JM, Kojic N, Smith K, Chen PI, Yang J, Hwang H, Morgan B, Trautwein J, Barber TA, Stott SL, Maheswaran S, Kapur R, Haber DA, Toner M. Microfluidic, marker-free isolation of circulating tumor cells from blood samples. Nature Protoc 2014; 9: 694-710.

19. Liong M, Hoang AN, Chung J, Gural N, Ford CB, Min C, Shah RR, Ahmad R, Fernandez-Suarez M, Fortune SM, Toner M, Lee H, Weissleder R. Magnetic barcode assay for genetic detection of pathogens. Nat Commun 2013; 4: 1752.

20. Berendsen TA, Bruinsma BG, Puts CF, Saeidi N, Usta BO, Uygun B, Izamis ML, Yarmush ML, Uygun K. Successful supercooled liver storage for 4 days. Nature Medicine (in press)