A listing of recent publications from the investigators at the Center for Engineering in Medicine & Surgery at Massachusetts General Hospital.

Sevenler, D., Bardon, A., Fernandez Suarez, M., Marshall, L., Toner, M., Drain, P. K., & Sandlin, R. D. (2020). Immunoassay for HIV Drug Metabolites Tenofovir and Tenofovir Diphosphate. ACS infectious diseases, 10.1021/acsinfecdis.0c00010. Advance online publication.

de Vries, R. J., Tessier, S. N., Banik, P. D., Nagpal, S., Cronin, S., Ozer, S., Hafiz, E., van Gulik, T. M., Yarmush, M. L., Markmann, J. F., Toner, M., Yeh, H., & Uygun, K. (2020). Subzero non-frozen preservation of human livers in the supercooled state. Nature protocols, 10.1038/s41596-020-0319-3. Advance online publication.

Wang, X., Hossain, M., Bogoslowski, A., Kubes, P., & Irimia, D. (2020). Chemotaxing neutrophils enter alternate branches at capillary bifurcations. Nature communications, 11(1), 2385.

Raigani, S., Carroll, C., Griffith, S., Pendexter, C., Rosales, I., Deirawan, H., Beydoun, R., Yarmush, M., Uygun, K., & Yeh, H. (2020). Improvement of steatotic rat liver function with a defatting cocktail during ex situ normothermic machine perfusion is not directly related to liver fat content. PloS one, 15(5), e0232886.

Bulutoglu, B., Rey-Bedón, C., Mert, S., Tian, L., Jang, Y. Y., Yarmush, M. L., & Usta, O. B. (2020). A comparison of hepato-cellular in vitro platforms to study CYP3A4 induction. PloS one, 15(2), e0229106.

Huang H, Bedon CR, Yarmush ML, Usta OB. Deep-supercooling for extended preservation of adipose-derived stem cells. Cryobiology. 2019 Nov 18. pii: S0011-2240(19)30205-6. doi: 10.1016/j.cryobiol.2019.11.004. [Epub ahead of print] PMID: 31751557

Rubin AE, Usta OB, Schloss R, Yarmush M, Golberg A. Selective Inactivation of Pseudomonas aeruginosa and Staphylococcus epidermidis with Pulsed Electric Fields and Antibiotics. Adv Wound Care (New Rochelle). 2019 Apr 1;8(4):136-148. doi: 10.1089/wound.2018.0819. Epub 2019 Apr 3. PMID: 31737412

Kang YBA, Eo J, Bulutoglu B, Yarmush ML, Berk Usta O. Progressive Hypoxia-on-a-Chip: An In Vitro Oxygen Gradient Model for Capturing the Effects of Hypoxia on Primary Hepatocytes in Health and Disease. Biotechnol Bioeng. 2019 Nov 18. doi: 10.1002/bit.27225. [Epub ahead of print] PMID: 31736056

Hopke A, Irimia D. Ex Vivo Human Neutrophil Swarming Against Live Microbial Targets. Methods Mol Biol. 2020;2087:107-116. doi: 10.1007/978-1-0716-0154-9_8. PMID: 31728986

Gokduman K. Sensitization of cisplatin-resistant ovarian cancer cells by magnetite iron oxide nanoparticles: an in vitro study. Nanomedicine (Lond). 2019 Nov 14. doi: 10.2217/nnm-2019-0126. [Epub ahead of print] PMID: 31724481

de Vries RJ, Banik PD, Nagpal S, Weng L, Ozer S, van Gulik TM, Toner M, Tessier SN, Uygun K. Bulk Droplet Vitrification for Primary Hepatocyte Preservation. J Vis Exp. 2019 Oct 25;(152). doi: 10.3791/60250. PMID: 31710044

Raigani S, De Vries RJ, Uygun K, Yeh H. Rapid maturation of the hepatic cell line Huh7 via CDK inhibition for PXR dependent CYP450 metabolism and induction. Artif Organs. 2019 Nov 5. doi: 10.1111/aor.13579. [Epub ahead of print] PMID: 31691326

Bulutoglu B, Mert S, Rey-Bedón C, Deng SL, Yarmush ML, Usta OB. Rapid maturation of the hepatic cell line Huh7 via CDK inhibition for PXR dependent CYP450 metabolism and induction. Sci Rep. 2019 Nov 1;9(1):15848. doi: 10.1038/s41598-019-52174-w. PMID: 31676845

Karimian N, Raigani S, Huang V, Nagpal S, Hafiz EOA, Beijert I, Mahboub P, Porte RJ, Uygun K, Yarmush M, Yeh H. Subnormothermic Machine Perfusion of Steatotic Livers Results in Increased Energy Charge at the Cost of Anti-Oxidant Capacity Compared to Normothermic Perfusion. Metabolites. 2019 Oct 24;9(11). pii: E246. doi: 10.3390/metabo9110246. PMID: 31652927

Park J, Baik SH, Mook-Jung I, Irimia D, Cho H. Mimicry of Central-Peripheral Immunity in Alzheimer's Disease and Discovery of Neurodegenerative Roles in Neutrophil. Front Immunol. 2019 Sep 25;10:2231. doi: 10.3389/fimmu.2019.02231. eCollection 2019.PMID: 31611872

Tessier SN, Weng L, Moyo WD, Au SH, Wong KHK, Angpraseuth C, Stoddard AE, Lu C, Nieman LT, Sandlin RD, Uygun K, Stott SL, Toner M. Effect of Ice Nucleation and Cryoprotectants during High Subzero-Preservation in Endothelialized Microchannels. ACS Biomater Sci Eng. 2018 Aug 13;4(8):3006-3015. doi: 10.1021/acsbiomaterials.8b00648. Epub 2018 Jun 26. PMID: 31544149

Childers CL, Tessier SN, Storey KB. The heart of a hibernator: EGFR and MAPK signaling in cardiac muscle during the hibernation of thirteen-lined ground squirrels, Ictidomys tridecemlineatus. PeerJ. 2019 Sep 5;7:e7587. doi: 10.7717/peerj.7587. eCollection 2019. PMID: 31534849

de Vries RJ, Tessier SN, Banik PD, Nagpal S, Cronin SEJ, Ozer S, Hafiz EOA, van Gulik TM, Yarmush ML, Markmann JF, Toner M, Yeh H, Uygun K. Supercooling extends preservation time of human livers. Nat Biotechnol. 2019 Oct;37(10):1131-1136. doi: 10.1038/s41587-019-0223-y. Epub 2019 Sep 9. PMID: 31501557 [PubMed - in process]

Cavalcante LDS, Toner M, Uygun K, Tessier SN. Leveraging the zebrafish to model organ transplantation. Curr Opin Organ Transplant. 2019 Oct;24(5):613-619. doi: 10.1097/MOT.0000000000000696. PMID: 31483338

Bulutoglu B, Rey-Bedón C, Kang YBA, Mert S, Yarmush ML, Usta OB. A microfluidic patterned model of non-alcoholic fatty liver disease: applications to disease progression and zonation. Lab Chip. 2019 Sep 10;19(18):3022-3031. doi: 10.1039/c9lc00354a.

de Vries RJ, Yarmush M, Uygun K. Systems engineering the organ preservation process for transplantation. Curr Opin Biotechnol. 2019 Aug;58:192-201. doi: 10.1016/j.copbio.2019.05.015. Epub 2019 Jul 4. Review. PMID: 31280087

Li L, Gokduman K, Gokaltun A, Yarmush ML, Usta OB. A microfluidic 3D hepatocyte chip for hepatotoxicity testing of nanoparticles. Nanomedicine (Lond). 2019 Aug;14(16):2209-2226. doi: 10.2217/nnm-2019-0086. Epub 2019 Jun 10. PMID:31179822

Mahboub P, Aburawi M, Karimian N, Lin F, Karabacak M, Fontan F, Tessier SN, Markmann J, Yeh H, Uygun K. The efficacy of HBOC-201 in ex situ gradual rewarming kidney perfusion in a rat model. Artif Organs. 2019 Jul 10. doi: 10.1111/aor.13534. [Epub ahead of print]

Yeh H, Uygun K. Increasing Donor Liver Utilization Through Machine Perfusion. Hepatology. 2019 Jul;70(1):431-433. doi: 10.1002/hep.30523. Epub 2019 Mar 18. No abstract available. PMID: 30681724

Geerts S, Ozer S, Chu C, Fuchs BC, Tanabe KK, Yeh H, Uygun K. Exploring donor demographics effects on hepatocyte yield and viability: Results of whole human liver isolation from one center. PMID: 31414037 [PubMed] Free PMC Article

Chen Y, Devalliere J, Bulutoglu B, Yarmush ML, Uygun BE. Repopulation of intrahepatic bile ducts in engineered rat liver grafts. Technology (Singap World Sci). 2019 Mar-Jun;7(1-2):46-55. doi: 10.1142/S2339547819500043. Epub 2019 Jun 28. PMID: 31388515 [PubMed] Free PMC Article

Ligorio M, Sil S, Malagon-Lopez J, Nieman LT, Misale S, Di Pilato M, Ebright RY, Karabacak MN, Kulkarni AS, Liu A, Vincent Jordan N, Franses JW, Philipp J, Kreuzer J, Desai N, Arora KS, Rajurkar M, Horwitz E, Neyaz A, Tai E, Magnus NKC, Vo KD, Yashaswini CN, Marangoni F, Boukhali M, Fatherree JP, Damon LJ, Xega K, Desai R, Choz M, Bersani F, Langenbucher A, Thapar V, Morris R, Wellner UF, Schilling O, Lawrence MS, Liss AS, Rivera MN, Deshpande V, Benes CH, Maheswaran S, Haber DA, Fernandez-Del-Castillo C, Ferrone CR, Haas W, Aryee MJ, Ting DT. Stromal Microenvironment Shapes the Intratumoral Architecture of Pancreatic Cancer. Cell. 2019 Jun 27;178(1):160-175.e27. doi: 10.1016/j.cell.2019.05.012. Epub 2019 May 30. PMID: 31155233

Yan C, Brunson DC, Tang Q, Do D, Iftimia NA, Moore JC, Hayes MN, Welker AM, Garcia EG, Dubash TD, Hong X, Drapkin BJ, Myers DT, Phat S, Volorio A, Marvin DL, Ligorio M, Dershowitz L, McCarthy KM, Karabacak MN, Fletcher JA, Sgroi DC, Iafrate JA, Maheswaran S, Dyson NJ, Haber DA, Rawls JF, Langenau DM. Visualizing Engrafted Human Cancer and Therapy Responses in Immunodeficient Zebrafish.. Cell. 2019 Jun 13;177(7):1903-1914.e14. doi: 10.1016/j.cell.2019.04.004. Epub 2019 Apr 25. PMID: 31031007

Ellett F, Jalali F, Marand AL, Jorgensen J, Mutlu BR, Lee J, Raff AB, Irimia D. Microfluidic arenas for war games between neutrophils and microbes. Lab Chip. 2019 Mar 27;19(7):1205-1216. doi: 10.1039/c8lc01263f. PMID: 30865740 [PubMed - indexed for MEDLINE]

Jones CN, Ellett F, Robertson AL, Forrest KM, Judice K, Balkovec JM, Springer M, Markmann JF, Vyas JM, Warren HS, Irimia D. Bifunctional Small Molecules Enhance Neutrophil Activities Against Aspergillus fumigatus in vivo and in vitro. Front Immunol. 2019 Apr 9;10:644. doi: 10.3389/fimmu.2019.00644. eCollection 2019. PMID: 31024528 [PubMed - in process] Free PMC Article

Mead BE, Karp JM. All models are wrong, but some organoids may be useful. Genome Biol. 2019 Mar 27;20(1):66. doi: 10.1186/s13059-019-1677-4. No abstract available. PMID: 30917855 [PubMed - in process] Free Article

Irimia D, Wang X. Inflammation-on-a-Chip: Probing the Immune System Ex Vivo. Trends Biotechnol. 2018 Sep;36(9):923-937. doi: 10.1016/j.tibtech.2018.03.011. Epub 2018 May 1. Review. PMID: 29728272

Kumar S, Tan Y, Yarmush ML, Dash BC, Hsia HC, Berthiaume F. Mouse Model of Pressure Ulcers After Spinal Cord Injury. J Vis Exp. 2019 Mar 9;(145). doi:10.3791/58188. PubMed PMID: 30907872.

Ellett F, Jalali F, Marand AL, Jorgensen J, Mutlu BR, Lee J, Raff AB, Irimia D. Microfluidic arenas for war games between neutrophils and microbes. Lab Chip. 2019 Mar 27;19(7):1205-1216. doi: 10.1039/c8lc01263f. PubMed PMID: 30865740.

Fuchs BB, Eatemadpour S, Martel-Foley JM, Stott S, Toner M, Mylonakis E. Rapid Isolation and Concentration of Pathogenic Fungi Using Inertial Focusing on a Chip-Based Platform. Front Cell Infect Microbiol. 2019 Feb 12;9:27. doi: 10.3389/fcimb.2019.00027. eCollection 2019. PubMed PMID: 30809512; PubMed Central PMCID: PMC6379272.

Sevenler D, Trueb J, Ünlü MS. Beating the reaction limits of biosensor sensitivity with dynamic tracking of single binding events. Proc Natl Acad Sci U S A. 2019 Feb 19. pii: 201815329. doi: 10.1073/pnas.1815329116. [Epub ahead of print] PubMed PMID: 30782809.

Tessier SN, Wu CW, Storey KB. Molecular control of protein synthesis, glucose metabolism, and apoptosis in the brain of hibernating thirteen-lined ground squirrels. Biochem Cell Biol. 2019 Feb 14. doi: 10.1139/bcb-2018-0256. [Epub ahead of print] PubMed PMID: 30763120.

de Haan L, van der Lely SJ, Warps AK, Hofsink Q, Olthof PB, de Keijzer MJ, Lionarons DA, Mendes-Dias L, Bruinsma BG, Uygun K, Jaeschke H, Farrell GC, Teoh N, van Golen RF, Li T, Heger M. Post-hepatectomy liver regeneration in the context of bile acid homeostasis and the gut-liver signaling axis. J Clin Transl Res. 2018 May 28;4(1):1-46. doi: 10.18053/jctres.04.201801.001. Epub 2018 Feb 16. PubMed PMID: 30761355; PubMed Central PMCID: PMC6370335.

Rubin AE, Levkov K, Usta OB, Yarmush M, Golberg A. IGBT-Based Pulsed Electric Fields Generator for Disinfection: Design and In Vitro Studies on Pseudomonas aeruginosa. Ann Biomed Eng. 2019  Feb 6. doi: 10.1007/s10439-019-02225-0. [Epub ahead of print] PubMed PMID: 30726513.

Wu S, Li X, Meng S, Fung T, Chan AT, Liang G, Giovannucci E, De Vivo I, Lee JH, Nan H. Fruit and vegetable consumption, cigarette smoke, and leukocyte mitochondrial DNA copy number. Am J Clin Nutr. 2019 Feb 1;109(2):424-432. doi:10.1093/ajcn/nqy286. PubMed PMID: 30721920; PubMed Central PMCID: PMC6367969.

Yeh H, Uygun K. Increasing Donor Liver Utilization Through Machine Perfusion. Hepatology. 2019 Jan 25. doi: 10.1002/hep.30523. [Epub ahead of print] PubMed PMID: 30681724.

Poster J, Chu C, Weber JM, Lydon M, Dylewski M, Uygun K, Sheridan RL. Specific Patterns of Postoperative Temperature Elevations Predict Blood Infection in Pediatric Burn Patients. J Burn Care Res. 2019 Feb 20;40(2):220-227. doi:10.1093/jbcr/irz002. PubMed PMID: 30668737; PubMed Central PMCID: PMC6382406.

Weng L, Stott SL, Toner M. Exploring Dynamics and Structure of Biomolecules, Cryoprotectants, and Water Using Molecular Dynamics Simulations: Implications for Biostabilization and Biopreservation. Annu Rev Biomed Eng. 2018 Dec 10. doi: 10.1146/annurev-bioeng-060418-052130. [Epub ahead of print] PubMed PMID: 30525930.

Lee S, Greenstein T, Shi L, Maguire T, Schloss R, Yarmush M. Tri-culture system for pro-hapten sensitizer identification and potency classification. Technology (Singap World Sci). 2018 Jun;6(2):67-74. doi: 10.1142/S233954781850005X. Epub 2018 Jun 29. PubMed PMID: 30519598; PubMed Central PMCID: PMC6276108.

LeValley PJ, Tibbitt MW, Noren B, Kharkar P, Kloxin AM, Anseth KS, Toner M, Oakey J.Immunofunctional photodegradable poly(ethylene glycol) hydrogel surfaces for the capture and release of rare cells. Colloids Surf B Biointerfaces. 2019 Feb 1;174:483-492. doi: 10.1016/j.colsurfb.2018.11.049. Epub 2018 Nov 20. PubMed PMID: 30497010.

Weng L, Lee GY, Liu J, Kapur R, Toth TL, Toner M. On-chip oocyte denudation from cumulus-oocyte complexes for assisted reproductive therapy. Lab Chip. 2018 Dec 4;18(24):3892-3902. doi: 10.1039/c8lc01075g. PubMed PMID: 30465050; PubMed Central PMCID: PMC6335650.

Otawara M, Roushan M, Wang X, Ellett F, Yu YM, Irimia D. Microfluidic Assay Measures Increased Neutrophil Extracellular Traps Circulating in Blood after Burn Injuries. Sci Rep. 2018 Nov 19;8(1):16983. doi: 10.1038/s41598-018-34952-0. PubMed PMID: 30451882; PubMed Central PMCID: PMC6242863.

Martins PN, Berendsen TA, Yeh H, Bruinsma BG, Izamis ML, Op den Dries S, Gillooly AR, Porte R, Yarmush ML, Uygun K, Markmann JF. Oxygenated UW Solution Decreases ATP Decay and Improves Survival After Transplantation of DCD Liver Grafts. Transplantation. 2019 Feb;103(2):363-370. doi: 10.1097/TP.0000000000002530. PubMed PMID: 30422952.

Li X, Saeidi N, Villiger M, Albadawi H, Jones JD, Quinn KP, Austin WG Jr, Golberg A, Yarmush ML. Rejuvenation of aged rat skin with pulsed electric fields. J Tissue Eng Regen Med. 2018 Dec;12(12):2309-2318. doi: 10.1002/term.2763. Epub 2018 Nov 22. PubMed PMID: 30353675.

Ellett F, Jorgensen J, Marand AL, Liu YM, Martinez MM, Sein V, Butler KL, Lee J, Irimia D. Diagnosis of sepsis from a drop of blood by measurement of spontaneous neutrophil motility in a microfluidic assay. Nat Biomed Eng. 2018 Apr;2(4):207-214. doi: 10.1038/s41551-018-0208-z. Epub 2018 Mar 19. PubMed PMID: 30283724; PubMed Central PMCID: PMC6166236.

Bhan I, Mosesso K, Goyal L, Philipp J, Kalinich M, Franses JW, Choz M, Oklu R, Toner M, Maheswaran S, Haber DA, Zhu AX, Chung RT, Aryee M, Ting DT. Detection and Analysis of Circulating Epithelial Cells in Liquid Biopsies From Patients With Liver Disease. Gastroenterology. 2018 Dec;155(6):2016-2018.e11. doi:10.1053/j.gastro.2018.09.020. Epub 2018 Sep 13. PubMed PMID: 30218669; PubMed Central PMCID: PMC6347478.