In Press

Majeed HKandel MHan KLuo ZMacias VTangella KBalla APopescu G.  In Press.  Breast cancer diagnosis using Spatial Light Interference Microscopy (SLIM). Journal of Biomedical Optics – Special Section on Quantitative Phase Imaging in Medicine.

Nguyen TMajeed HPopescu G.  In Press.  Monochromatic and plane wave decomposition of ergodic fields. Optics Letters.

2019

Journal

Alvarez MM, Aizenberg J, Analoui M, Andrews AM, Bisker G, Boyden ES, Kamm RD, Karp JM, Mooney DJ, Oklu R, Peer D, Stolzoff M, Strano MS, Trujillo-de Santiago G, Webster TJ, Weiss PS, Khademhosseini A. Emerging Trends in Micro- and Nanoscale Technologies in Medicine: From Basic Discoveries to Translation. ACS Nano. 2017 Jun 27;11(6):5195-5214

Asada, H. H., & Sotiropoulos, F. E. (2019). Dual Faceted Linearization of Nonlinear Dynamical Systems Based on Physical Modeling Theory. ASME Journal of Dynamic Systems, Measurement, and Control, 141(2), 021002.

Aydin, O., Zhang, X., Nuethong, S., Pagan-Diaz, G. J., Bashir, R., Gazzola, M., & Saif, M. T. A. (2019). Neuromuscular actuation of biohybrid motile bots. Proceedings of the National Academy of Sciences, 201907051.

Ballance WC, Qin EC, Chung HJ, Gillette MU, Kong H. Reactive oxygen species-responsive drug delivery systems for the treatment of neurodegenerative diseases. Biomaterials, 217: 119292, 2019. 

Ben-Yair R, Butty VL, Busby M, Qiu Y, Levine SS, Goren A, Boyer LA, Burns CG, Burns CE. H3K27me3-mediated silencing of structural genes is required for zebrafish heart regeneration. Development. 2019 Oct 9;146(19). pii: dev178632.

Boyce AS, Avent C, Adetogun A, Servance L, DeStefano L, Nerem R, Platt MO. 
Implementation and evaluation of a biotechnology research experience for African-American high school students. Eval Program Plann. 2019 Feb; 72:162-169.

Cangellaris OV, Corbin EO, Froeter P, Michaels JA, Li X, Gillette MU. Aligning synthetic hippocampal neural circuits via self-rolled-up silicon nitride microtube arrays. ACS Appl Mater Interfaces 42: 35705-35714, 2018. 

Cheng CW, Biton M, Haber AL, Gunduz N, Eng G, Gaynor LT, Tripathi S, Calibasi-Kocal G, Rickelt S, Butty VL, Moreno-Serrano M, Iqbal AM, Bauer-Rowe KE, Imada S, Ulutas MS, Mylonas C, Whary MT, Levine SS, Basbinar Y, Hynes RO, Mino-Kenudson M, Deshpande V, Boyer LA, Fox JG, Terranova C, Rai K, Piwnica-Worms H, Mihaylova MM, Regev A, Yilmaz ÖH. Ketone Body Signaling Mediates Intestinal Stem Cell Homeostasis and Adaptation to Diet. Cell. 2019 Aug 22;178(5):1115-1131.e15.

Churchill, C. D. M., Winter, P., Tuszynski, J. A., and Levin, M., (2019), EDEn – Electroceutical Design Environment: Ion Channel Tissue Expression Database with Small Molecule Modulators, iScience, 11:42-56

Daniel A. Porto, John Giblin, Yiran Zhao, Hang Lu, “Reverse-Correlation Analysis of Mechanosensation Circuit in C. elegans Reveals Temporal and Spatial Encoding”, Scientific Reports, 9.1 (2019): 5182. 

Douglas SA, Lamothe SE, Singleton TS, Averett RD, Platt MO. Human cathepsins K, L, and S: Related proteases, but unique fibrinolytic activity. Biochim Biophys Acta Gen Subj. 2018 Sep;1862(9):1925-1932.  Epub 2018 Jun 23.

EC Qin, ME Kandel, E Liamas, TB Shah, C Kim. Graphene oxide substrates with N-cadherin stimulates neuronal growth and intracellular transport. Acta Biomaterialia, 2019.

Elhebeary, M., Emon, M. A. B., Aydin, O., & Saif, M. T. A. (2019). A novel technique for in situ uniaxial tests of self-assembled soft biomaterials. Lab on a Chip, 19(7), 1153-1161

Eunkyung Ko, Seung Jung Yu, Gelson J.Pagán-Díaz, Ziad Mahmassani, Marni D. Boppart, Sung Gap Im, Rashid Bashir, Hyunjoon Kong, Reciprocity between Nanogrooved Substrate-Mediated  Muscle  Maturity  and  Neurons toward Neuromuscular Junction Formation,  Advanced Science. 2019.

Fanous M, Li Y, Kandel M, Abdeen A, Kilian K, Popescu G. Effects of substrate patterning on cellular spheroid growth and dynamics measured by gradient light interference microscopy (GLIM). Journal of Biophotonics (2019). doi: 10.1002/jbio.201900178.

G. J. Pagan-Diaz, X. Zhang, L. Grant, Y. Kim, O. Aydin, C. Cvetkovic, E. Ko, E. Solomon, J. Hollis, H. Kong, T. Saif, M. Gazzola, and R. Bashir, “Simulation and Fabrication of Stronger, Larger, and Faster Walking Biohybrid Machines”, Adv. Funct. Mater. 28, 1801145 (2018).

G. S. Offeddu, K. Haase, M. R. Gillrie, R. Li, O. Morozova, D. Hickman, C. G. Knutson, R. D. Kamm. An on-chip model of protein paracellular and transcellular permeability in the microcirculation. Biomaterials 2019, 212, 115.

Glen, C.M., Kemp, M.L., Voit, E.O. “Agent-based modeling of morphogenetic systems: Advantages and challenges”. PLoS Comput Biol, 15(3): e1006577, 2019.

Glen, C.M., McDevitt, T.C., Kemp, M.L. “Dynamic intercellular transport modulates the spatial patterning of differentiation during early neural commitment”. Nature Communications, 9(1): 4111, 2018.

Gongchen Sun, and Hang Lu, “Recent Advances in Microfluidic Techniques for Systems Biology”, Analytical Chemistry, 2019, 91 (1), 315-329

Grant L, Raman R, Cvetkovic C, Ferrall-Fairbanks MC, Pagan-Diaz GJ, Hadley P, Ko E, Platt MO, Bashir R. Long-Term Cryopreservation and Revival of Tissue-Engineered Skeletal Muscle. Tissue Eng Part A. 2019 Jul;25(13-14):1023-1036.Epub 2019 Jan 9.

Hu C, Popescu G. Quantitative Phase Imaging (QPI) in Neuroscience. IEEE Journal of Selected Topics in Quantum Electronics 25: 1–9, 2019.

Hu C, Sam R, Shan M, Nastasa V, Wang M, Kim T, Gillette MU, Sengupta P, Popescu G. Optical excitation and detection of neuronal activity. J. Biophotonics 12 (3): 9 pp, 2018. 

Hu C, Santi M, Adelaja O, Kajdacsy-Balla A, Popescu G, Kobak W. Imaging Collagen Properties in the Uterosacral Ligaments of Women With Pelvic Organ Prolapse Using Spatial Light Interference Microscopy (SLIM). Frontiers in Physics 7, 2019.

Jayaram DT, Kumar A, Kippner LE, Ho PY, Kemp ML, Fan Y, Payne CK. TiO 2 nanoparticles generate superoxide and alter gene expression in human lung cells. RSC Advances. 2019;9(43):25039-47.

Kamm, R.D, Bashir, R., Arora, N., Dar, R.D., Gillette, M.U., Griffith, L.G., Kemp, M.L., Kinlaw, K., Levin, M., Martin, A.C., McDevitt, T.C., Nerem, R.M., Powers, M.J., Saif, T.A., Sharpe, J., Takayama, S., Takeuchi, S., Weiss, R., Ye, K., Yevick, H.G., Zaman, M.H. “Perspective: The promise of multi-cellular engineered living systems”. APL Bioengineering, 2(4): 040901, 2019.

Kandel, M. E., Lu, W., Liang, J., Aydin, O., Saif, T. A., & Popescu, G. (2019). Cell-to-cell influence on growth in large populations. Biomedical Optics Express, 10(9), 4664-4675.

Kandel, M.E., Hu, C., Naseri Kouzehgarani, G. et al. Epi-illumination gradient light interference microscopy for imaging opaque structures. Nat Commun 10, 4691 (2019) doi:10.1038/s41467-019-12634-3

Kathleen Bates, Shen Jiang, Ruth Bates, Shivesh Chaudhary, Emily Jackson-Holmes, Melinda Jue, Erin McCaskey, Daniel Goldman, Hang Lu, “Fast, versatile, and quantitative annotation of complex images”, BioTechniques, 66.6 (2019): 269-275. 

Khodaverdian V, Tapadar S, MacDonald IA, Xu Y, Ho PY, Bridges A, Rajpurohit P, Sanghani BA, Fan Y, Thangaraju M, Hathaway NA, Oyelere AK (2019) Deferiprone: Pan-selective Histone Lysine Demethylase Inhibition Activity and Structure Activity Relationship Study. Sci Rep. 9(1):4802 

Kim, H., Kim, M. C., & Asada, H. H. Extracellular matrix remodelling induced by alternating electrical and mechanical stimulations increases the contraction of engineered skeletal muscle tissues. Scientific reports, 9(1), 2732, 2019.

Ko, E., Yu, S. J., Pagan‐Diaz, G. J., Mahmassani, Z., Boppart, M. D., Im, S. G., … & Kong, H. (2019). Matrix topography regulates synaptic transmission at the neuromuscular junction. Advanced Science, 6(6), 1801521.

Levin, M., and Martyniuk, C. J., (2018), The bioelectric code: An ancient computational medium for dynamic control of growth and form, BioSystems, 164: 76-93

Li Y, Fanous MJ, Kilian KA, Popescu G. Quantitative phase imaging reveals matrix stiffness-dependent growth and migration of cancer cells. Scientific Reports 9, 2019.

Li, Z., Seo, Y., Aydin, O., Elhebeary, M., Kamm, R., Kong, H. and Saif, M. (2019). Biohybrid valveless pump-bot powered by engineered skeletal muscle. Proceedings of the National Academy of Sciences, 116(5), pp.1543-1548.

Mathews, J., and Levin, M., (2018), The Body Electric 2.0: Recent Advances in Developmental Bioelectricity for Regenerative and Synthetic Bioengineering, Current Opinion in Biotechnology, 52: 134-144

Mayalu, M., Kim, M. and Asada, H. (2019). Multi-Cell ECM compaction is predictable via superposition of nonlinear cell dynamics linearized in augmented state space. PLOS Computational Biology, 15(9), p.e1006798.

Mehdipour N., Briers D., Haghighi I., Glen C., Kemp M.L., Belta C. “Spatial-Temporal Pattern Synthesis in a Network of Locally Interacting Cells”. 57th IEEE Conference on Decision and Control, 2018.

Mehdipour, Noushin & Briers, Demarcus & Haghighi, Iman & Glen, Chad & Kemp, Melissa & Belta, Calin. (2018). Spatial-Temporal pattern Synthesis in a Network of Locally Interacting Cells. 3516-3521. 10.1109/CDC.2018.8618702.

Naseri Kouzehgarani G., M.Y. Bothwell, M.U. Gillette. 2019. Circadian Rhythm of Redox State in Hippocampal CA1 Regulates Neuronal Excitability. European Journal of Neuroscience. 00: 1-13

O.V. Cangellaris, E.A. Corbin, P. Froeter, X. Li, M.U. Gillette. “Biocompatible Self-Rolled-Up Silicon Nitride Microtube Arrays Align Hippocampal Neuronal Circuits.” ACS Appl. Mater. Interfaces. 10(42), pp. 35705-35714, Sept. 2018.

Offeddu, G. S.,  Possenti, L.,  Loessberg‐Zahl, J. T.,  Zunino, P.,  Roberts, J.,  Han, X.,  Hickman, D.,  Knutson, C. G.,  Kamm, R. D.,  Application of Transmural Flow Across In Vitro Microvasculature Enables Direct Sampling of Interstitial Therapeutic Molecule Distribution. Small  2019, 1902393. https://doi.org/10.1002/smll.201902393

Osaki T, Serrano J, Kamm R. Cooperative Effects of Vascular Angiogenesis and Lymphangiogenesis. Regenerative Engineering and Translational Medicine 2018 vol: 4 (3) pp: 120-132

Parks AN, Nahata J, Edouard NE, Temenoff JS, Platt MO. Sequential, but not Concurrent, Incubation of Cathepsin K and L with Type I Collagen Results in Extended Proteolysis. Sci Rep. 2019 Apr 1;9(1):5399.

Peña, J.S.; Robles, D.; Zhang, S.; Vazquez, M. A Milled Microdevice to Advance Glia-Mediated Therapies in the Adult Nervous System. Micromachines 2019, 10, 513.

Punjiya, M., Nehad, H. R., Mathews, J., Levin, M., Sonkusale, S., (2019), A flow through device for simultaneous dielectrophoretic cell trapping and AC electroporation, Scientific Reports, 9:11988

Reducing health disparities in adult vision loss via interfaces with emerging technology,’ Nature Eye 2019, Apr;33(4):532-533.

Self-Similar Dynamics of Nuclear Packing in the Early Drosophila Embryo. Biophys J. 2019 Aug 20;117(4):743-750. 

Shin, Y.,  Choi, S. H.,  Kim, E.,  Bylykbashi, E.,  Kim, J. A.,  Chung, S.,  Kim, D. Y.,  Kamm, R. D.,  Tanzi, R. E.,  Blood–Brain Barrier Dysfunction in a 3D In Vitro Model of Alzheimer’s Disease. Adv. Sci.  2019,  6, 1900962. https://doi.org/10.1002/advs.201900962

Singh, T., & Vazquez, M. (2019). Time-Dependent Addition of Neuronal and Schwann Cells Increase Myotube Viability and Length in an In Vitro Tri-culture Model of the Neuromuscular Junction. Regenerative Engineering and Translational Medicine, 1-12.

Takabayashi M, Majeed H, Kajdacsy-Balla A, Popescu G. Tissue spatial correlation as cancer marker. Journal of Biomedical Optics 24: 1, 2019.

Takayama, S. “Embracing Heterogeneity and Disorder” Israel J Chem 2019, 59, 95-99. 

Whited, J., and Levin, M., (2019), Bioelectrical controls of morphogenesis: from ancient mechanisms of cell coordination to biomedical opportunities, Current Opinion in Genetics & Development, 57: 61-69

Wong L, Kumar A, Gabela-Zuniga B, Chua J, Singh G, Happe CL, Engler AJ, Fan Y, McCloskey KE. (2019) Substrate stiffness directs diverging vascular fates. Acta Biomater. 96:321-329. 

Yamanishi, C., Oliver, C. R., Kojima, T., & Takayama, S. (2019). Stigmatic Microscopy Enables Low-Cost, 3D, Microscale Particle Imaging Velocimetry in Rehydrating Aqueous Two-Phase Systems. Frontiers in chemistry, 7, 311. doi:10.3389/fchem.2019.00311

Yamanishi, C., Robinson, S., & Takyama, S. (2019). Biofabrication of phenotypic pulmonary fibrosis assays. Biofabrication, 11, 3. doi:10.1088/1758-5090/ab2286

Yunfeng Chen, Lining Arnold Ju, Fangyuan Zhou, Jiexi Liao, Lingzhou Xue, Qian Peter Su, Dayong Jin, Yuping Yuan, Hang Lu, Shaun P. Jackson, Cheng Zhu, “An integrin αIIbβ3 intermediate affinity state mediates biomechanical platelet aggregation”, Nature Materials, 2019, 18, 760–769

Brown, AT; He, H;  PhD; Trumper, E; Valdez, J; Hammond, P; Griffith, LG, “Engineering PEG-based hydrogels to foster efficient endothelial network formation in free-swelling and confined microenvironments, “ submitted (2019)

He, H; Sofman,M; Wang, J-S;  Ahrens, CC; Wang W, Griffith,LG; and Hammond, PT. “Engineering Helical Modular Polypeptide-Based Hydrogels as Synthetic Extracellular Matrices for Cell Culture,” submitted (2019).

Wang, W; Brown, A; Griffith, LG; Hammond, P. “Biological activity of synthetic polypeptide-hyaluronan conjugates” submitted (2019)

Wu, M., Nissim, L., Stupp, D., Pery, E., Binder-Nissim, A., Weisinger, K., Enghuus, C., Palacios, S., Humphrey, M., Zhang, Z., Novoa, E., Kellis, M., Weiss, R., Rabkin, S., Tabach, Y., Lu, T., (July 2019). A high-throughput screening and computation platform for identifying synthetic promoters with enhanced cell-state specificity (SPECS). Nature Communications, DIO: 10.1007/s12213-019-00119-x

Mapar, F., Weiss, R., (May 2019). Switching Delay Analysis for Two Neuronal Toggle Switch Designs: Direct and Staged Mutual Inhibition. 9th International IEEE/EMBS Conference on Neural Engineering (NER), DIO: 10.1109/NER.2019.8717123

Anderson, D., Jones, R., Arkin, A., Weiss, R., (May 2019). Principles of Synthetic Biology: A MOOC for an Emerging Field. Synthetic Biology, DIO: 10.1093/synbio/ysz010

Mapar, F., Weiss, R., (October 2018). Design and Analysis of Staged Mutual Inhibition to Implement Bi-Stable Neuronal Toggle Switch. Proceedings of the 2018 IEEE Biomedical Circuits and Systems Conference (BioCAS). DOI: 10.1109/BIOCAS.2018.8584816. Published Conference Proceeding.

Books

C. Hu and G. Popescu. “Quantitative Phase Imaging: Principles and Applications”. Label-Free Super-Resolution Microscopy. September 2019. Springer, Cham.