Representative Publications

Kosuri S, Borca CH, Mugnier H, Tamasi M, Patel RA, Perez I, Kumar S, Finkel Z, Schloss R, Cai L, Yarmush ML, Webb MA, Gormley AJ. Machine-Assisted discovery of chondroitinase ABC complexes toward sustained neural regeneration. Adv Healthcare Mater. 2022; e2102101. doi: 10.1002/adhm.202102101. [Online ahead of print]

Liang C, Carrel D, Singh NK, Hiester LL, Fanget I, Kim H, Firestein BL. Carboxypeptidase E independently changes microtubule glutamylation, dendritic branching, and neuronal migration. ASN Neuro. 2022; 14: 17590914211062765.

Leipheimer J, Balter M, Chen A, Yarmush ML. Design and Evaluation of a handheld robotic device for peripheral catheterization. J Med Device. 2022; 16: 021015.

Acevedo A, Mavroudis PD, DuBois D, Almon RR, Jusko WJ, Androulakis IP. Pathway-level analysis of genome-wide circadian dynamics in diverse tissues in rat and mouse. J Pharmacokinet Pharmacodyn. 2021; 48: 361-374.

James JK, Nanda V. A folding insulator defines cryptic domains in tropomyosin. J Mol Biol. 2021; 433: 167281.

Upadhya R, Kosuri S, Tamasi M, Meyer TA, Atta S, Webb MA, Gormley AJ. Automation and data-driven design of polymer therapeutics. Adv Drug Deliv Rev. 2021; 171: 1-28.

Robles DA, Boreland AJ, Pang ZP, Zahn JD. A cerebral organoid connectivity apparatus to model neuronal tract circuitry. Micromachines. 2021; 12: 1574.

Liu X, Bibineyshvili Y, Robles DA, Boreland AJ, Margolis DJ, Shreiber DI, Zahn JD. Fabrication of a multilayer implantable cortical microelectrode probe to improve recording potential. J Microelectromech Syst. 2021; 30: 569-581.

Peña JS, Vazquez M. Microfluidic systems to examine Müller glia responses to anti-VEGF treatments. Nature Eye. 2021; 35: 3189-3191.

Xu R, Boreland AJ, Li X, Erickson C, Jin M, Atkins C, Pang ZP, Daniels BP, Jiang P. Developing human pluripotent stem cell-based cerebral organoids with a controllable microglia ratio for modeling brain development and pathology. Stem Cell Reports. 2021; 16: 1923-1937.

Timmins LM, Burr AM, Carroll K, Keefe R, Teryek M, Cantolupo LJ, van der Loo JCM, Heathman TRJ, Gormley A, Smith D, Parekkadan B. Selecting a cell engineering methodology during cell therapy product development. Cell Transplant. 2021; 30: 1-17.

Erickson P, Houwayek T, Burr A, Teryek M, Parekkadan B. A continuous flow cell culture system for precision cell stimulation and time-resolved profiling of cell secretion. Anal Biochem. 2021; 625: 114213.

Patel M, Li Y, Anderson J, Castro-Pedrido S, Skinner R, Lei S, Finkel Z, Rodriguez B, Esteban F, Lee KB, Lyu YL, Cai L. Gsx1 promotes locomotor functional recovery after spinal cord injury. Mol Therapy. 2021; 29: 2469-2482.

Patel M, Anderson J, Lei S, Finkel Z, Rodriguez B, Esteban F, Risman R, Li Y, Lee KB, Lyu YL, Cai L. Nkx6.1 enhances neural stem cell activation and attenuates glial scar formation and neuroinflammation in the adult injured spinal cord. Exp Neurol. 2021; 345: 113826.

Cooper JF, Guasp RJ, Arnold ML, Grant BD, Driscoll M. Stress increases in exopher-mediated neuronal extrusion require lipid biosynthesis, FGF, and EGF RAS/MAPK signaling. Proc Natl Acad Sci 2021; 118: e2101410118.

Singh NK, Khaliq S, Patel M, Wheeler N, Vedula S, Freeman JW, Firestein BL. Uric acid released from poly(ε-caprolactone) fibers as a treatment platform for spinal cord injury. J Tissue Eng Regen Med. 2021; 15: 14-23.

Ashley BK, Hassan U. Time-domain signal averaging to improve microparticles detection and enumeration accuracy in a microfluidic impedance cytometer. Biotechnol Bioeng. 2021; 118: 4428-4440.

Ashley BK, Sui J, Javanmard M, Hassan U. Functionalization of hybrid surface microparticles for in vitro cellular antigen classification. Anal Bioanal Chem. 2021; 413: 555-564.

Fritz ZR, Schloss RS, Yarmush ML, Williams LJ. HSymM-guided engineering of the immunodominant p53 transactivation domain putative peptide antigen for improved binding to its anti-p53 monoclonal antibody. Bioorg Med Chem Lett. 2021; 51: 128341.

Omelchenko A, Menon H, Donofrio SG, Kumar G, Chapman HM, Roshal J, Martinez-Montes ER, Wang TL, Spaller MR, Firestein BL. Interaction between CRIPT and PSD-95 is required for proper dendritic arborization in hippocampal neurons. Mol Neurobiol. 2020; 57: 2479-2493.

Omelchenko A, Singh NK, Firestein BL. Current advances in in vitro models of central nervous system trauma. Curr Opin Biomed Eng. 2020; 14: 34-41.

Kosol W, Kumar S, Marrero-BerrÍos I, Berthiaume F. Medium conditioned by human mesenchymal stromal cells reverses low serum and hypoxia-induced inhibition of wound closure. Biochem Biophys Res Commun. 2020; 522: 335-341.

Anderson J, Patel M, Forenzo D, Ai X, Cai C, Wade Q, Risman R, Cai L. A novel mouse model for the study of endogenous neural stem and progenitor cells after traumatic brain injury. Exp Neurol. 2020; 325: 113119.

Newman JH, Chesson CB, Herzog NL, Bommareddy PK, Aspromonte SM, Zloza A. Intratumoral injection of the seasonal flu shot converts immunologically cold tumors to hot and serves as an immunotherapy for cancer. Proc Natl Acad Sci. 2020; 117: 1119-1128.

Krzyszczyk P, Kang HJ, Kumar S, Meng Y, O'Reggio MD, Patel K, Pires IS, Yarmush ML, Schloss RS, Palmer AF, Berthiaume F. Anti-inflammatory effects of haptoglobin on LPS-stimulated macrophages: Role of HMGB1 signaling and implications in chronic wound healing. Wound Repair Regen. 2020; 28: 493-505.

Marrero-Berrios I, Shrirao A, Rabolli CP, Hirday R, Schloss RS, Yarmush ML. Multi-layer stackable tissue culture platform for 3D co-culture. Technology. 2020; 8: 37-49.

Chen A, Balter M, Maguire TJ, Yarmush ML. Deep learning robotic guidance for autonomous vascular access. Nature Machine Intelligence. 2020; 2: 104-115.

Chuang ST, Cruz S, Narayanaswami V. Reconfiguring nature's cholesterol accepting lipoproteins as nanoparticle platforms for transport and delivery of therapeutic and imaging agents. Nanomaterials. 2020; 10: 906.

Godesky MD, Shreiber DI. Hyaluronic acid-based hydrogels with independently tunable mechanical and bioactive signaling features. Biointerphases. 2020; 14: 061005.

Xu R, Li X, Boreland AJ, Posyton A, Kwan K, Hart RP, Jiang P. Human iPSC-derived mature microglia retain their identity and functionally integrate in the chimeric mouse brain. Nature Communications. 2020; 11: 1577.

James JK, Nanda V. Comparative dynamics of tropomyosin in vertebrates and invertebrates. Proteins. 2020; 88: 265-273.

Acevedo A, DuBois D, Almon RR, Jusko WJ, Androulakis IP. Modeling pathway dynamics of the skeletal muscle response to intravenous methylprednisolone (MPL) administration in rats: dosing and tissue effects. Front Bioeng Biotechnol. 2020; 8: 759.

Crosta CM, Hernandez K, Bhattiprolu AK, Fu AY, Moore JC, Clarke SG, Dudzinski NR, Brzustowicz LM, Paradiso KG, Firestein BL. Characterization hiPSC-derived neural progenitor cells and neurons to investigate the role of NOS1AP isoforms in human neuron dendritogenesis. Mol Cell Neurosci. 2020; 109: 103562.

Okeke E, Chen L, Madura K. The cellular location of Rad23, a polyubiquitin chain-binding protein, plays a key role in its interaction with substrates of the proteasome. J Mol Biol. 2020; 432: 2388-2404.

Prakash S, Ashley BK, Doyle PS, Hassan U. Design of a multiplexed analyte biosensor using digital barcoded particles and impedance spectroscopy. Nature Sci Rep. 2020; 10: 6109.

Upadhya R, Murthy NS, Hoop CL, Kosuri S, Nanda V, Kohn J, Baum J, Gormley AJ. PET-RAFT and SAXS: high throughput tools to study compactness and flexibility of single-chain polymer nanoparticles. Macromolecules. 2019; 52: 8295-8304.

Browe D, Freeman J. Optimizing C2C12 myoblast differentiation using polycaprolactone-polypyrrole copolymer scaffolds. J Biomed Mater Res A. 2019; 107: 220-231.

Scott TE, Khalili A, Newton B, Warren R, Browe DP, Freeman JW. Characterization and optimization of a positively charged poly (ethylene glycol) diacrylate hydrogel as an actuating muscle tissue engineering scaffold. Polym Adv Technol. 2019; 30: 2604-2612.

Lowe CJ, DiMartini ET, Mirmajlesi KR, Gormley AJ, Shreiber DI. Free radical-mediated targeting and immobilization of coupled payloads. J Drug Target. 2019; 27: 1025-1034.

Acevedo A, Berthel A, DuBois D, Almon RR, Jusko WJ, Androulakis IP. Pathway-based analysis of the liver response to intravenous methylprednisolone administration in rats: acute versus chronic dosing. Gene Regul Syst Bio. 2019; 13: 1177625019840282.

Li HL, Zaghloul N, Ahmed I, Omelchenko A, Firestein BL, Huang H, Collins L. Caffeine inhibits hypoxia-induced nuclear accumulation in HIF-1α and promotes neonatal neuronal survival. Exp Neurol. 2019; 317: 66-77.

Davis MS, Marrero-Berrios I, Perez I, Rabolli CP, Radhakrishnan P, Manchikalapati D, Schianodicola J, Kamath H, Schloss RS, Yarmush J. Alginate encapsulation for bupivacaine delivery and mesenchymal stromal cell immunomodulatory cotherapy. J Inflamm Res. 2019; 12: 87-97.

Kumar S, Marrero-Berrios I, Kabat M, Berthiaume F. Recent advances in the use of algal polysaccharides for skin wound healing. Curr Pharm Design. 2019; 25: 1236-1248

Omelchenko A, Shrirao AB, Bhattiprolu AK, Zahn JD, Schloss RS, Dickson S, Meaney DF, Boustany NN, Yarmush ML, Firestein BL. Dynamin and reverse-mode sodium calcium exchanger blockade confers neuroprotection from diffuse axonal injury. Cell Death Dis. 2019; 10: 727.

Leipheimer JM, Balter ML, Chen AI, Pantin EJ, Davidovich AE, Labazzo KS, Yarmush ML. First-in-human evaluation of a hand-held automated venipuncture device for rapid venous blood draws. Technology. 2019; 7: 98-107.

Burr A, Parekkadan B. Kinetics of MSC-based enzyme therapy for immunoregulation. J Transl Med. 2019; 17: 263.

Newman J, NeMoyer R, Zloza A, Langenfeld J. Double-humanized mouse model to study bone morphogenetic protein (BMP) signaling in tumor xenografts. Methods Mol Biol. 2019; 1891: 257-262.

Liang C, Carrel D, Omelchenko A, Kim H, Patel A, Fanget I, Firestein BL. Cortical neuron migration and dendrite morphology are regulated by Carboxypeptidase E. Cerebral Cortex. 2019; 29: 2890-2903.

Misenko SM, Patel DS, Her J, Bunting SF. DNA repair and cell cycle checkpoint defects in a mouse model of 'BRCAness' are partially rescued by 53BP1 deletion. Cell Cycle. 2018; 17: 881-891.

Krzyszczyk P, Acevedo A, Davidoff EJ, Timmins LM, Marrero-Berrios I, Patel M, White C, Lowe C, Sherba JJ, Hartmanshenn C, O'Neill KM, Balter ML, Fritz ZR, Androulakis IP, Schloss RS, Yarmush ML. The growing role of precision and personalized medicine for cancer treatment. Technology. 2018; 6: 79-100.

Davis MS, Marrero-Berrios I, Perez I, Maguire T, Radhakrishnan P, Manchikalapati D, Schianodicola J, Kamath H, Schloss RS, Yarmush J. Alginate-liposomal construct for bupivacaine delivery and MSC function regulation. Drug Deliv Transl Res. 2018; 8: 226-238.

Yang L, Chueng SD, Li Y, Patel M, Rathnam C, Dey G, Wang L, Cai L, Lee KB. A biodegradable hybrid inorganic nanoscaffold for advanced stem cell therapy. Nature Communications. 2018; 9: 3147.

Newman JH, Augeri DJ, NeMoyer R, Malhotra J, Langenfeld E, Chesson CB, Zloza A, Langenfeld J. Novel bone morphogenetic protein receptor inhibitor JL5 suppresses tumor cell survival signaling and induces regression of human lung cancer. Oncogene. 2018; 37: 3672-3685.

Swiatkowski P, Sewell E, Sweet ES, Dickson S, Swanson RA, McEwan SA, Cuccolo N, McDonnell ME, Patel MV, Varghese N, Morrison B, Reitz AB, Meaney DF, Firestein BL. Cypin: A novel target for traumatic brain injury. Neurobiol Dis. 2018; 119: 13-25.

James JK, Pike DH, Khan IJ, Nanda V. Structural and dynamic properties of allergen and non-allergen forms of tropomyosin. Structure. 2018; 26: 997-1006.

Peña J, Dulger N, Singh T, Zhou J, Majeska R, Redenti S, Vazquez M. Controlled microenvironments to evaluate chemotactic properties of cultured Müller glia. Exp Eye Res. 2018; 173: 129-137.

Cheng LC, Li Z, Graeber TG, Graham NA, Drake JM. Phosphopeptide enrichment coupled with label-free quantitative mass spectrometry to investigate the phosphoproteome in prostate cancer. J Vis Exp. 2018; 138: 57996

Shrirao AB, Fritz Z, Novik EM, Yarmush GM, Schloss RS, Zahn JD, Yarmush ML. Microfluidic flow cytometry: The role of microfabrication methodologies, performance, and functional specification. Technology, 2018; 6: 1-23,

Krzyszczyk P, Schloss R, Palmer A, Berthiaume F. The Role of Macrophages in Acute and Chronic Wound Healing and Interventions to Promote Pro-wound Healing Phenotypes. Frontiers in Physiology. 2018; 9:419. PMCID: PMC5938667.

Balter M, Leipheimer JM, Chen A, Shrirao A, Maguire TJ, Yarmush ML. Automated end-to-end blood testing at the point-of-care: Integration of robotic phlebotomy with downstream sample processing. Technology. 2018; 6: 59-66.

Omelchenko A, Firestein BL. Lipids and phosphates at odds in synaptic depression. J Biol Chem. 2018; 293: 1568-1569.

O’Neill KM, Donohue K E, Omelchenko A, Firestein BL. The 3′ UTRs of brain-derived neurotrophic factor transcripts differentially regulate the dendritic arbor. Front Cell Neurosci. 2018; 12: 60.

Patel JM, Jackson RC, Schneider GL, Ghodbane SA, Dunn MG. Carbodiimide cross-linking counteracts the detrimental effects of gamma irradiation on the physical properties of collagen-hyaluronan sponges. J Mater Sci Mater Med. 2018; 29: 75.

Svane K C, Asis EK, Omelchenko A, Kunnath A J, Brzustowicz LM, Silverstein SM, Firestein BL. d-Serine administration affects nitric oxide synthase 1 adaptor protein and DISC1 expression in sex-specific manner. Mol Cell Neurosci2018; 89, 20-32.

Patel DS, Misenko SM, Her J, Bunting SF. BLM helicase regulates DNA repair by counteracting RAD51 loading at DNA double-strand break sites. J Cell Biol. 2017; 216: 3521-3534.

Yarmush G, Santos L, Yarmush J, Koundinyan S, Saleem M, Nativ NI, Yarmush ML, Berthiaume F, Maguire TJ. CFD assessment of the effect of convective mass transport on the intracellular clearance of intracellular triglycerides in macrosteatotic hepatocytes. Biomech Model Mechanobiol. 2017; 16: 1095-1102.

Acevedo A, and Androulakis IP. Allostatic breakdown of cascading homeostat systems: A computational approach. Heliyon 2017; 3: e00355.

Li Y, Anderson J, Kwan KY, Cai L. Single-cell transcriptome analysis of neural stem cells. Curr Pharmacol Rep. 2017; 3: 68-76.

Cheng LC, Tan VM, Ganesan S, Drake JM. Integrating phosphoproteomics into the clinical management of prostate cancer. Clin Transl Med. 2017; 6: 9.

Melentijevic I, Toth ML, Arnold ML, Guasp RJ, Harinath G, Nguyen KC, Taub D, Parker JA, Neri C, Gabel CV, Hall DH, Driscoll M. C. elegans neurons jettison protein aggregates and mitochondria under neurotoxic stress. Nature. 2017; 542: 367-371.

Menon R, Krzyszczyk P, Berthiaume F. Pro-resolution potency of resolvins D1, D2 and E1 on neutrophil migration and dermal wound healing. Nano LIFE. 2017; 7: 1750002.

Faulknor R, Olekson M, Ekwueme E, Krzyszczyk P, Freeman J, Berthiaume F. Hypoxia impairs mesenchymal stromal cell-induced macrophage M1 to M2 transition. Technology 2017; 5: 81-86.

Fromholtz A, Balter ML, Chen AI, Leipheimer JM, Shrirao A, Maguire TJ, Yarmush ML. Design and Evaluation of a Robotic Device for Automated Tail Vein Cannulations in Rodent Models. J Med Device. 2017; 11: 410081-410087. 

Newman JH, Zloza A. Infection: A Cause of and Cure for Cancer. Curr Pharmacol Rep. 2017; 3: 315–320.

Shrirao AB, Kung FH, Omelchenko A, Schloss RS, Boustany NN, Zahn JD, Yarmush ML, Firestein BL. Microfluidic platforms for the study of neuronal injury in vitro. Biotechnol Bioeng. 2018; 115: 815-830.

Das Gupta S, Patel M, Wahler J, Bak MJ, Wall B, Lee MJ, Lin Y, Shih WJ, Cai L, Yang CS, Suh N. Differential gene regulation and tumor-inhibitory activities of alpha-, delta-, and gamma-tocopherols in estrogen-mediated mammary carcinogenesis. Cancer Prev Res. 2017; 10: 694–703.

Rathnam C, Chueng S, Yang L, Lee KB. Advanced gene manipulation methods for stem cell theranostics. Theranostics, 2017; 7: 2775-2793.

Kamisoglu K, Acevedo A, Almon RR, Coyle S, Corbett S, Dubois DC, Nguyen TT, Jusko WJ, Androulakis IP. Understanding physiology in the continuum: integration of information from multiple-omics levels.  Front Pharmacol. 2017; 8 :91.

Xi Y, Kim T, Brumwell AN, Driver IH, Wei Y, Tan V, Jackson JR, Xu J, Lee DK, Gotts JE, Matthay MA, Shannon JM, Chapman HA, Vaughan AE. Local lung hypoxia determines epithelial fate decisions during alveolar regeneration. Nature Cell Biol 2017; 19: 904-914.

Rao RT, Scherholz ML, Hartmanshenn C, Bae SA, Androulakis IP. On the analysis of complex biological supply chains: from process systems engineering to quantitative systems pharmacology. Comput Chem Eng. 2017; 107: 100–110.

Bae SA, Androulakis IP. The synergistic role of light-feeding phase relations on entraining robust circadian rhythms in the periphery. Gene Regul Syst Bio. 2017; 11: 1177625017702393.

Drzewiecki KE, Malavade JN, Ahmed I, Lowe CJ, Shreiber DI. A thermoreversible, photocrosslinkable collagen bio-ink for free-form fabrication of scaffolds for regenerative medicine. Technology 2017; 5: 185-195.

Kohlhapp FJ. Huelsmann EJ, Lacek AT, Schenkel JM, Lusciks J, Broucek JR, Goldufsky JW, Hughes T, Zayas JP, Dolubizno H, Sowell RT, Kuehner R, Burd S, Kubasiak JC, Nabatiyan A, Marshall S, Bommareddy PK, Li S, Newman JH, Monken CE, Shafikhani S, Marzo AL, Guevara-Patino JA, Lasfar A, Thomas PG, Lattime EC, Kaufman HL, Zloza A. Non-oncogenic acute viral infection disrupts anti-cancer responses and lead to accelerated cancer-specific host death. Cell Rep2016; 17: 957-965.

Tan VM, Cheng LC, Drake JM. Complementing genomics and transcriptomics: Phosphoproteomics illuminates systems biology in prostate cancer. Mol Cell Oncol. 2016; 3: e1246075.

Ghodbane SA, Dunn MG. Physical and mechanical properties of cross-linked type I collagen scaffolds derived from bovine, porcine, and ovine tendons. J Biomed Mater Res A. 2016; 104: 2685-92.

Lowe CJ, Reucroft IM, Grota MC, Shreiber DI. Production of highly aligned collagen scaffolds by freeze-drying of self-assembled, fibrillar collagen gels. ACS Biomater Sci Eng. 2016; 2: 643-651.

Rao RT, Browe DP, Lowe CJ, Freeman JW. An overview of recent patents on musculoskeletal interface tissue engineering. Connect Tissue Res. 2016; 57: 53-67.

Samizadeh M, Zhang X, Gunaseelan S, Nelson AG, Palombo MS, Myers DR, Singh Y, Ganapathi U, Szekely Z, Sinko PJ. Colorectal delivery and retention of PEG-Amprenavir-Bac7 nanoconjugates--proof of concept for HIV mucosal pre-exposure prophylaxis. Drug Deliv Transl Res. 2016; 6: 1-16.

Maguire T, Davis M, Marrero-Berrios I, Zhu C, Gaughan C, Weinberg J, Manchikalapati D, SchianodiCola J, Kamath H, Schloss R, Yarmush J. Control release anesthetics to enable an integrated anesthetic-mesenchymal stromal cell therapeutic. Int J Anesthesiol Pain Med. 2016; 2: 3.

Bae, S, Acevedo A, and Androulakis IP. Asymmetry in signal oscillations contributes to efficiency of periodic systems. Crit Rev Biomed Eng. 2016; 44: 193-211.

Yin PT, Shah S, Chhowalla M, Lee KB. Design, synthesis, and characterization of graphene-nanoparticle hybrid materials for bio-applications. Chemical Reviews. 2015; 7: 2483-2780.

Carrel D, Hernandez K, Kwon M, Mau C, Trivedi MP, Brzustowicz LM, Firestein BL. Nitric oxide synthase 1 adaptor protein, a protein implicated in schizophrenia, controls radial migration of cortical neurons. Biol Psychiatry. 2015; 77: 969-78.

Ghodbane M, Stucky EC, Maguire TJ, Schloss RS, Shreiber DI, Zahn JD, Yarmush ML. Development and validation of a microfluidic immunoassay capable of multiplexing parallel samples in microliter volumes. Lab on a Chip. 2015; 15: 3211-21.

Jacobs JZ, Rosado-Lugo JD, Cranz-Mileva S, Ciccaglione K, Tournier V, Zaratiegui M. Arrested replication forks guide retrotransposon integration. Science. 2015; 349: 1549-1553.

Ghodbane M, Kulesa A, Yu HH, Maguire TJ, Schloss RR, Ramachandran R, Zahn JD, Yarmush ML. Development of a low volume, highly sensitive microimmunoassay using computational fluid dynamics-driven multiobjective optimization. Microfluidics Nanofluidics. 2015; 18: 199-214. PMC4327895

Olekson MA, Faulknor R, Bandekar A, Sempkowski M, Hsia HC, Berthiaume F. SDF-1 liposomes promote sustained cell proliferation in mouse diabetic wounds. Wound Repair Regen. 2015; 23: 711-23.

Aijaz A, Faulknor R, Berthiaume F, Olabisi RM. Hydrogel microencapsulated insulin-secreting cells increase keratinocyte migration, epidermal thickness, collagen fiber density, and wound closure in a diabetic mouse model of wound healing. Tissue Eng Part A. 2015; 21: 2723-32.

Nelson AG, Zhang X, Ganapathi U, Szekely Z, Flexner CW, Owen A, Sinko PJ. Drug delivery strategies and systems for HIV/AIDS pre-exposure prophylaxis and treatment. J Controlled Release. 2015; 219: 669-80.

Lewis DR, Petersen LK, York AW, Zablocki KR, Joseph LB, Kholodovych V, Prud'homme RK, Uhrich KE, Moghe PV. Sugar-based amphiphilic nanoparticles arrest atherosclerosis in vivo. Proc Natl Acad Sci. 2015; 112: 2693-8. PMC4352838

Faulknor RA, Olekson MA, Nativ NI, Ghodbane M, Gray AJ, Berthiaume F. Mesenchymal stromal cells reverse hypoxia-mediated suppression of α-smooth muscle actin expression in human dermal fibroblasts. Biochem Biophys Res Commun. 2015; 458: 8-13.

Tedeschi PM, Vazquez A, Kerrigan JE, Bertino JR. Mitochondrial methylenetetrahydrofolate dehydrogenase (MTHFD2) overexpression is associated with tumor cell proliferation and is a novel target for drug development. Mol Cancer Res. 2015; 13: 1361-6. PMC4618031

Martin AA, Tomasini M, Kholodovych V, Gu L, Sommerfeld SD, Uhrich KE, Murthy NS, Welsh WJ, Moghe PV. Carbohydrate-derived amphiphilic macromolecules: a biophysical structural characterization and analysis of binding behaviors to model membranes. J Funct Biomaterials. 2015; 6: 171-91.

Tedeschi PM, Lin H, Gounder M, Kerrigan JE, Abali EE, Scotto K, Bertino JR. Suppression of cytosolic NADPH pool by thionicotinamide increases oxidative stress and synergizes with chemotherapy.  Mol Pharmacol. 2015; 88: 720-7. PMC4576680

Stucky EC, Schloss RS, Yarmush ML, Shreiber DI. Alginate micro-encapsulation of mesenchymal stromal cells enhances modulation of the neuro-inflammatory response. Cytotherapy. 2015; 17: 1353-64.

Gray A, Maguire T, Schloss R, Yarmush ML. Identification of IL-1β and LPS as optimal activators of monolayer and alginate-encapsulated mesenchymal stromal cell immunomodulation using design of experiments and statistical methods. Biotechnol Prog. 2015; 31: 1058-70. 

O'Neill KM, Akum BF, Dhawan ST, Kwon M, Langhammer CG, Firestein BL. Assessing effects on dendritic arborization using novel Sholl analyses. Front Cell Neurosci. 2015; 9: 285. PMC4519774

McKeon-Fischer KD, Browe DP, Olabisi RM, Freeman JW. Poly(3,4-ethylenedioxythiophene) nanoparticle and poly(ɛ-caprolactone) electrospun scaffold characterization for skeletal muscle regeneration. J Biomed Mater Res A. 2015; 103: 3633-41.

Nguyen J, Papathomas PV, Ravaliya JH, Torres EB. Methods to Explore the Influence of Top-down visual processes on motor behavior.  J Vis Exp. 2014; 16: 86

Naczynski DJ, Tan MC, Riman RE, Moghe PV. Rare earth nanoprobes for functional biomolecular imaging and theranostics. J Mater Chem B Mater Biol Med. 2014; 2: 2958-2973. PMC4048749

Dollé JP, Morrison B 3rd, Schloss RS, Yarmush ML. Brain-on-a-chip microsystem for investigating traumatic brain injury: Axon diameter and mitochondrial membrane changes play a significant role in axonal response to strain injuries. Technology. 2014; 2:106. PMC4120884

Barminko JA, Nativ NI, Schloss R, Yarmush ML. Fractional factorial design to investigate stromal cell regulation of macrophage plasticity. Biotechnol Bioeng. 2014; 111: 2239-51.

Nativ NI, Yarmush G, So A, Barminko J, Maguire TJ, Schloss R, Berthiaume F, Yarmush ML. Elevated sensitivity of macrosteatotic hepatocytes to hypoxia/reoxygenation stress is reversed by a novel defatting protocol. Liver Transplantation. 2014; 20: 1000-11. PMC4117728

Nativ NI, Chen AI, Yarmush G, Henry SD, Lefkowitch JH, Klein KM, Maguire TJ, Schloss R, Guarrera JV, Berthiaume F, Yarmush ML. Automated image analysis method for detecting and quantifying macrovesicular steatosis in hematoxylin and eosin-stained histology images of human livers. Liver Transplantation. 2014; 20: 228-36.

Khan AG, Whidby J, Miller MT, Scarborough H, Zatorski AV, Cygan A, Price AA, Yost SA, Bohannon CD, Jacob J, Grakoui A, Marcotrigiano J. Structure of the core ectodomain of the hepatitis C virus envelope glycoprotein 2. Nature. 2014; 509: 381-4. 

Lee S, Dong DX, Jindal R, Mitra B, Maguire T, Schloss R, Yarmush ML. Predicting full thickness skin sensitization using a support vector machine. Toxicology In Vitro. 2014; 28: 1413-23.

Yin PT, Shah BP, Lee KB. Combined magnetic nanoparticle-based microRNA and hyperthermia therapy to enhance apoptosis in brain cancer cells. Small. 2014; 10: 4106-12.

Jacobs JZ, Ciccaglione KM, Tournier V, Zaratiegui M. Implementation of the CRISPR-Cas9 system in fission yeast. Nature Communications. 2014; 5: 5344.

Drzewiecki KE, Parmar AS, Gaudet ID, Branch JR, Pike DH, Nanda V, Shreiber DI. Methacrylation induces rapid, temperature dependent, reversible self-assembly of type-I collagen. Langmuir. 2014; 30: 11204-11.

Tedeschi PM, Kathari YK, Farooqi IN, Bertino JR. Leucovorin rescue allows effective high dose pralatrexate treatment and an increase in therapeutic index in mesothelioma xenografts. Cancer Chemother Pharmacol. 2014; 74: 1029-32.

Misenko SM, Bunting SF. Rapid analysis of chromosome aberrations in mouse B lymphocytes by PNA-FISH. J Vis Exp. 2014; 90: 51806.

Simhadri S, Peterson S, Patel DS, Huo Y, Cai H, Bowman-Colin C, Miller S, Ludwig T, Ganesan S, Bhaumik M, Bunting SF, Jasin M, Xia B. Male fertility defect associated with disrupted BRCA1-PALB2 interaction in mice. J Biol Chem. 2014; 289: 24617-29

Milberg O, Tora M, Shitara A, Takuma T, Masedunskas A, Weigert R. Probing the role of the actin cytoskeleton during regulated exocytosis by intravital microscopy. Methods Mol Biol. 2014; 1174: 407-21. 

Gonzalez-Flores JN, Shetty SP, Dubey A, Copeland PR. The molecular biology of selenocysteine. Biomolec Concepts. 2013; 4: 349-65.

Vazquez A, Tedeschi PM, Bertino JR. Overexpression of the mitochondrial folate and glycine-serine pathway: a new determinant of methotrexate selectivity in tumors. Cancer Res. 2013; 73: 478-82.

Sweet ES, Langhammer CL, Kutzing MK, Firestein BL. Semiautomated analysis of dendrite morphology in cell culture. Methods Mol Biol. 2013; 1018: 261-8.

Naczynski DJ, Tan MC, Zevon M, Wall B, Kohl J, Kulesa A, Chen S, Roth CM, Riman RE, Moghe PV. Rare-earth-doped biological composites as in vivo shortwave infrared reporters. Nature Communications. 2013; 4: 2199. 

Dollé JP, Morrison B 3rd, Schloss RS, Yarmush ML. A brain slice organotypic uniaxial strain model using microfluidics. Lab on a Chip. 2013; 13: 432-42. PMC3546521

Nativ NI, Yarmush G, Chen A, Dong D, Henry SD, Guarrera JV, Klein KM, Maguire T, Schloss R, Berthiaume F, Yarmush ML. Rat hepatocyte culture model of macrosteatosis: effect of macrosteatosis induction and reversal on viability and liver specific function. J Hepatol. 2013; 59: 1307-14.

Langhammer CG, Kutzing MK, Luo V, Zahn JD, Firestein BL. A topographically modified substrate-embedded MEA for directed myotube formation at electrode contact sites. Ann Biomed Eng. 2013; 41: 408-20.

Chen A, Nikitczuk K, Nikitczuk J, Maguire T, Yarmush M. Portable robot for autonomous venipuncture using 3D near infrared image guidance. Technology.  2013; 1: 72-87.

Sasso LA, Aran K, Guan YL, Undar A, Zahn JD.  Continuous monitoring of inflammation biomarkers during simulated cardiopulmonary bypass using a microfluidic immunoassay device - a pilot study. Artificial Organs.  2013; 37: E9-E17. 

Lewis DR, Kholodovych V, Tomasini MD, Abdelhamid D, Petersen LK, Welsh WJ, Uhrich KE, Moghe PV. In silico design of antiatherogenic biomaterials. Biomaterials. 2013; 34: 7950-9. PMC3880781.

Macabenta FD, Jensen AG, Cheng YS, Kramer JJ, Kramer SG. Frazzled/DCC facilitates cardiac cell outgrowth and attachment during Drosophila dorsal vessel formation. Dev Biol. 2013; 380: 233-42.  PMC4137861.

Tedeschi PM, Markert EK, Gounder M, Lin H, Dvorzhinski D, Dolfi SC, Chan LL, Qiu J, DiPaola RS, Hirshfield KM, Boros LG, Bertino JR, Oltvai ZN, Vazquez A. Contribution of serine, folate and glycine metabolism to the ATP, NADPH, and purine requirements of cancer cells. Cell Death Dis. 2013; 4: e877.

Nikitczuk KP, Schloss RS, Yarmush ML, Lattime EC. PLGA-polymer encapsulating tumor antigen and CpG DNA administered into the tumor microenvir0onment elicits a systemic antigen-specific IFN-γ response and enhances survival. J Cancer Ther. 2013; 4: 280-290. PMC3670804

Toth ML, Melentijevic I, Shah L, Bhatia A, Lu K, Talwar A, Naji H, Ibanez-Ventoso C, Ghose P, Jevince A, Xue J, Herndon LA, Bhanot G, Rongo C, Hall DH, Driscoll M. Neurite sprouting and synapse deterioration in the aging Caenorhabditis elegans nervous system. J Neurosci. 2012; 32: 8778-90

Gonzalez-Flores JN, Gupta N, DeMong LW, Copeland PR. The selenocysteine-specific elongation factor contains a novel and multi-functional domain. J Biol Chem. 2012; 287: 38936- 45. 

Kutzing MK, Luo V, Firestein BL. Protection from glutamate induced excitotoxicity by memantine. Ann Biomed Eng. 2012; 40: 1170-81.

Chen A, Yarmush ML, Maguire T. Physiologically based pharmacokinetic models: integration of in silico approaches with micro cell culture analogues. Curr Drug Metab. 2012; 13: 863- 80.

Masand SN, Chen J, Perron IJ, Hammerling BC, Loers G, Schachner M, Shreiber DI. The effect of glycomimetic functionalized collagen on peripheral nerve repair. Biomaterials. 2012; 33: 8353-62.

Sasso LA, Johnston IH, Zheng M, Gupte RK, Ündar A, Zahn JD. Automated microfluidic processing platform for multiplexed magnetic bead immunoassays. Microfluidics Nanofluidics. 2012; 13: 603-612.

Masand SN, Perron IJ, Schachner M, Shreiber DI. Neural cell type-specific responses to glycomimetic functionalized collagen. Biomaterials. 2012; 33: 790-797.

York AW, Zablocki KR, Lewis DR, Gu L, Uhrich KE, Prud'homme RK, Moghe PV. Kinetically assembled nanoparticles of bioactive macromolecules exhibit enhanced stability and cell-targeted biological efficacy. Adv Mater. 2012; 24:733-9.

Nativ NI, Maguire TJ, Yarmush G, Brasaemle DL, Henry SD, Guarrera JV, Berthiaume F, Yarmush ML. Liver defatting: an alternative approach to enable steatotic liver transplantation. Am J Transplant. 2012; 12: 3176-83.

Sharma N, Jindal R, Mitra B, Lee S, Li L, Maguire TJ, Schloss R, Yarmush ML. Perspectives on non-animal alternatives for assessing sensitization potential in allergic contact dermatitis. Cellular & Molecular Bioengineering. 2012; 5: 52-72.

Langhammer CG, Kutzing MK, Luo V, Zahn JD, Firestein BL. Skeletal myotube integration with planar microelectrode arrays in vitro for spatially selective recording and stimulation: a comparison of neuronal and myotube extracellular action potentials. Biotechnol Prog. 2011; 27: 891-5. 

Masand SN, Mignone L, Zahn JD, Shreiber DI. Nanoporous membrane-sealed microfluidic devices for improved cell viability. Biomed Microdevices. 2011; 13: 955-61.

Della Valle MC, Sleat DE, Zheng H, Moore DF, Jadot M, Lobel P. Classification of subcellular location by comparative proteomic analysis of native and density-shifted lysosomes. Mol Cell Proteomics. 2011; 4: M110.006403.

Sundararaghavan HG, Masand SN, Shreiber DI. Microfluidic Generation of haptotactic gradients through 3d collagen gels for enhanced neurite growth. J Neurotrauma. 2011; 8: 2377-87.

Moloughney JG, Monken CE, Tao H, Zhang H, Thomas JD, Lattime EC, Jin SV. Vaccinia virus leads to ATG12-ATG3 conjugation and deficiency in autophagosome formation. Autophagy. 2011; 1434-1437.

Iverson NM, Plourde NM, Sparks SM, Wang J, Patel EN, Shah PS, Lewis DR, Zablocki KR, Nackman GB, Uhrich KE, Moghe PV. Dual use of amphiphilic macromolecules as cholesterol efflux triggers and inhibitors of macrophage athero-inflammation. Biomaterials. 2011; 32: 8319-27.

Sharma NS, Nagrath D, Yarmush ML. Metabolic profiling based quantitative evaluation of hepatocellular metabolism in presence of adipocyte derived extracellular matrix. PLoS One. 2011; 6: e20137 PMC3095641

Sweet ES, Previtera ML, Fernández JR, Charych EI, Tseng CY, Kwon M, Starovoytov V, Zheng JQ, Firestein BL. PSD-95 alters microtubule dynamics via an association with EB3. J Neurosci. 2011; 31: 1038-47. PMC3138189

Barminko J, Kim JH, Otsuka S, Gray A, Schloss R, Grumet M, Yarmush ML. Encapsulated mesenchymal stromal cells for in vivo transplantation in spinal cord injury. Biotechnol Bioeng. 2011; 108: 2747-58. PMC3178737.

Banerjee I, Sharma N, Yarmush ML. Impact of co-culture on pancreatic differentiation of embryonic stem cells. J Tissue Eng Regen Med, 2011; 5: 313-23.