Publications

Adams DSpencer, Uzel SGM, Akagi J, Wlodkowic D, Andreeva V, Yelick PCrotty, Devitt-Lee A, Paré J-F, Levin M.  2016.  Bioelectric signalling via potassium channels: a mechanism for craniofacial dysmorphogenesis in KCNJ2-associated Andersen-Tawil Syndrome.. J Physiol. 594(12):3245-70.

Adams DSpencer, Lemire JM, Kramer RH, Levin M.  2014.  Optogenetics in Developmental Biology: using light to control ion flux-dependent signals in Xenopus embryos.. Int J Dev Biol. 58(10-12):851-61.

Adams DSpencer, Lemire JM, Kramer RH, Levin M.  2014.  Optogenetics in Developmental Biology: using light to control ion flux-dependent signals in Xenopus embryos. The International Journal of Developmental Biology. 58(10-11-12):851-861.

Adams D.S, Tseng A.-S., Levin M.  2013.  Light-activation of the Archaerhodopsin H+-pump reverses age-dependent loss of vertebrate regeneration: sparking system-level controls in vivo. Biology Open. 2(3):306-313.

Adriani G, Pavesi A, Kamm RD.  2018.  Methods in Cell BiologyMicrofluidics in Cell Biology Part A: Microfluidics for Multicellular SystemsStudying TCR T cell anti-tumor activity in a microfluidic intrahepatic tumor model. 146:199-214.

Ahmed WW, Williams BJ, Silver AM, Saif T.  2013.  Measuring nonequilibrium vesicle dynamics in neurons under tension. Lab Chip. 13(4):570-8.

Ahmed WW, Saif T.  2014.  Active transport of vesicles in neurons is modulated by mechanical tension. Scientific Reports. 4(4481)

Ahmed WW, Li TC, Rubakhin SS, Chiba A, Sweedler JV, Saif T.  2012.  Mechanical tension modulates local and global vesicle dynamics in neurons.. Cell Mol Bioeng. 5(2):155-164.

Ahrens CC, M Welch E, Griffith LG, Hammond PT.  2015.  Uncharged Helical Modular Polypeptide Hydrogels for Cellular Scaffolds.. Biomacromolecules. 16(12):3774-83.

Alberts B, Cicerone RJ, Fienberg SE, Kamb A, McNutt M, Nerem RM, Schekman R, Shiffrin R, Stodden V, Suresh S et al..  2015.  SCIENTIFIC INTEGRITY. Self-correction in science at work.. Science. 348(6242):1420-2.

Alsous JImran, Villoutreix P, Berezhkovskii AM, Shvartsman SY.  2017.  Collective Growth in a Small Cell Network.. Curr Biol. 27(17):2670-2676.e4.

Alsous JImran, Villoutreix P, Stoop N, Shvartsman SY, Dunkel J.  2018.  Entropic effects in cell lineage tree packings. Nature Physics. 14(10):1016–1021.

Anand SV, M Ali Y, Saif T.  Submitted.  Cell culture on microfabricated one-dimensional polymeric structures for bio-actuator and bio-bot applications.

Anand SV, M Ali Y, Saif T.  2015.  Cell culture on microfabricated one-dimensional polymeric structures for bio-actuator and bio-bot applications. Lab Chip. 15(8):1879-1888.

Anderson SM, Shergill B, Barry ZT, Manousiouthakis E, Chen TT, Botvinick E, Platt MO, M Iruela-Arispe L, Segura T.  2011.  VEGF internalization is not required for VEGFR-2 phosphorylation in bioengineered surfaces with covalently linked VEGF. Integr Biol (Camb). 3(9):887-96.

Andukuri A, Min IJ, Hwang P, Alexander G, Marshall LE, Berry JL, Wick TM, Joung YKi, Yoon Y-S, Brott BC et al..  2014.  Evaluation of the effect of expansion and shear stress on a self-assembled endothelium mimicking nanomatrix coating for drug eluting stents in vitro and in vivo.. Biofabrication. 6(3):035019.

Andukuri A, Sohn Y-D, Anakwenze CP, Lim D-J, Brott BC, Yoon Y-S, Jun H-W.  2013.  Enhanced human endothelial progenitor cell adhesion and differentiation by a bioinspired multifunctional nanomatrix.. Tissue Eng Part C Methods. 19(5):375-85.

Ang XMin, Lee MHC, Blocki A, Chen C, Ong LLSharon, H Asada H, Sheppard A, Raghunath M.  2014.  Macromolecular crowding amplifies adipogenesis of human bone marrow-derived mesenchymal stem cells by enhancing the pro-adipogenic microenvironment.. Tissue Eng Part A. 20(5-6):966-81.

Anwar MSabieh, Majeed H, Shaheen A.  2015.  Analyzing combinations of circular birefringence, linear birefringence, and elliptical dichroism in magneto-optical rotators. Journal of Modern Optics. 62(1):75-84.

Aref AR, Campisi M, Ivanova E, Portell A, Larios D, Piel BP, Mathur N, Zhou C, Coakley RVlahos, Bartels A et al..  2018.  3D microfluidic ex vivo culture of organotypic tumor spheroids to model immune checkpoint blockade. Lab on a Chip. 18(20):3129-3143.

Arora N, Alsous JImran, Guggenheim JW, Mak M, Munera J, Wells JM, Kamm RD, H Asada H, Shvartsman SY, Griffith LG.  2017.  A process engineering approach to increase organoid yield.. Development. 144(6):1128-1136.

H Asada H, Wang Y, Mayalu M.N..  2011.  Molecular signaling observer and predictor: A framework for closed-loop control of cell behaviors having long time delay. American Control Conference (ACC), 2011.

H Asada H, Ong S, Dauwels J., Ang M..  2014.  A Bayesian Filtering Approach to Incorporate 2D/3D Time-lapse Confocal Images for Tracking Angiogenic Sprouting Cells Interacting with the Gel Matrix. Medical Image Analysis. 18(1):227.

Badea A, McCracken JM, Tillmaand EG, Kandel ME, Oraham AW, Mevis MB, Rubakhin SS, Popescu G, Sweedler JV, Nuzzo RG.  2017.  3D-Printed pHEMA Materials for Topographical and Biochemical Modulation of Dorsal Root Ganglion Cell Response. ACS Applied Materials & Interfaces. 9(36):30318-30328.

Baek K, Liang J, Lim WTing, Zhao H, Kim DHyun, Kong H.  2015.  In Situ Assembly of Antifouling/Bacterial Silver Nanoparticle-Hydrogel Composites with Controlled Particle Release and Matrix Softening. ACS Applied Materials & Interfaces. 7(28):15359-15367.

Baek K, Clay N, Qin E, Sullivan K, Kong H.  2015.  mIn situ assembly of the collagen-polyacrylamide interpenetrating network hydrogel: Enabling decoupled control of stiffness and degree of swelling. European Polymer Journal.

Baek K, Jeong JHyun, Shkumatov A, Bashir R, Kong H.  2013.  In situ self-folding assembly of a multi-walled hydrogel tube for uniaxial sustained molecular release.. Adv Mater. 25(39):5568-73.

Baek K, Clay N, Qin EC, Sullivan KM, Kim DHyun, Kong H.  2015.  In situ assembly of the collagen–polyacrylamide interpenetrating network hydrogel: Enabling decoupled control of stiffness and degree of swelling. European Polymer Journal.

Bajaj P, Marchwiany D, Duarte C, Bashir R.  2013.  Patterned three-dimensional encapsulation of embryonic stem cells using dielectrophoresis and stereolithography.. Adv Healthc Mater. 2(3):450-8.

Bajaj P, Schweller RM, Khademhosseini A, West JL, Bashir R.  2014.  3D Biofabrication Strategies for Tissue Engineering and Regenerative Medicine. Annual Review of Biomedical Engineering. 16

Bajaj P, Reddy B, Millet LJ, Wei C, Zorlutuna P, Bao G, Bashir R.  2011.  Patterning the differentiation of C2C12 skeletal myoblasts. Integr Biol (Camb). 3(9):897-909.

Bajaj P, Rivera JA, Marchwiany D, Solovyeva V, Bashir R.  2014.  Graphene-Based Patterning and Differentiation of C2C12 Myoblasts. Advanced Healthcare Materials.

Bajaj P, Tang X, Saif T, Bashir R.  2010.  Stiffness of the substrate influences the phenotype of embryonic chicken cardiac myocytes. J Biomed Mater Res A. 95(4):1261-9.

Ballance WC, Seo Y, Baek K, Chalifoux M, Kim D, Kong H.  2018.  Stretchable, anti-bacterial hydrogel activated by large mechanical deformation.. J Control Release. 275:1-11.

Ban S, Min E, Baek S, Kwon HMoo, Popescu G, Jung W.  2018.  Optical properties of acute kidney injury measured by quantitative phase imaging. Biomedical Optics Express. 96530612172929531132019163922121937362115382566108816522615221743678141114(3):921.

Ban K, Wile B, Kim S, Park H-J, Byun J, Cho K-W, Saafir T, Song M-K, Yu SPing, Wagner M et al..  2013.  Purification of cardiomyocytes from differentiating pluripotent stem cells using molecular beacons that target cardiomyocyte-specific mRNA.. Circulation. 128(17):1897-909.

Bao G, Bazilevs Y, Chung J-H, Decuzzi P, Espinosa HD, Ferrari M, Gao H, Hossain SS, Hughes TJR, Kamm RD et al..  2014.  USNCTAM perspectives on mechanics in medicine.. J R Soc Interface. 11(97):20140301.

Bao G, Mitragotri S, Tong S.  2013.  Multifunctional nanoparticles for drug delivery and molecular imaging.. Annu Rev Biomed Eng. 15:253-82.

Bao G, Nerem RM.  2014.  Frontiers in Bioengineering Research 42(2): 241-242, 2014.. Annals of Biomedical Engineering .

Bao G.  2014.  Nanomedicine: Tiny Particles & Machines Give Huge Gains. Annals of Biomedical Engineering. :243-59.

Barnes DE, Hwang H, Ono K, Lu H, Ono S.  2016.  Molecular evolution of troponin I and a role of its N-terminal extension in nematode locomotion. 73(3):117-130.

Barry ZT, Platt MO.  2012.  Cathepsin S cannibalism of cathepsin K as a mechanism to reduce type I collagen degradation. J Biol Chem. 287(33):27723-30.

Bartocci E, Gol EAydin, Haghighi I, Belta C.  2016.  A Formal Methods Approach to Pattern Recognition and Synthesis in Reaction Diffusion Networks. . IEEE Transactions on Control of Network Systems. PP(99)

Beal J, Lu T, Weiss R.  2011.  Automatic compilation from high-level biologically-oriented programming language to genetic regulatory networks. PLoS One. 6(8):e22490.

Beck C, Rico J.  Submitted.  “Microfluidic Measurement of the Effective Diffusivity of Biological Macromolecules” - In Review [ASME Journal of Biomechanical Engineering].

Beck C, Singh T, Farooqi A, Venkatesh T, Vazquez M.  2016.  Controlled microfluidics to examine growth-factor induced migration of neural progenitors in the Drosophila visual system.. J Neurosci Methods. 262:32-40.

Belair DG, Whisler JA, Valdez J, Velazquez J, Molenda JA, Vickerman V, Lewis R, Daigh C, Hansen TD, Mann DA et al..  2014.  Human vascular tissue models formed from human induced pluripotent stem cell derived endothelial cells.

Belair DG, Whisler JA, Valdez J, Velazquez J, Molenda JA, Vickerman V, Lewis R, Daigh C, Hansen TD, Mann DA et al..  2015.  Human vascular tissue models formed from human induced pluripotent stem cell derived endothelial cells.. Stem Cell Rev. 11(3):511-25.

Bhaduri B., Tangella K, Popescu G.  2013.  Fourier phase microscopy with white light.. Biomed Opt Express. 4(8):1434-41.

Bhaduri B, Wickland D, Wang R, Chan V, Bashir R, Popescu G.  2013.  Cardiomyocyte imaging using real-time spatial light interference microscopy (SLIM).. PLoS One. 8(2):e56930.

Bhaduri B, Kandel M, Brugnara C, Tangella K, Popescu G.  2014.  Optical assay of erythrocyte function in banked blood.. Sci Rep. 4:6211.

Bhaduri B., Edwards C, Pham H., Zhou R, Nguyen TH, Goddard L, Popescu G.  2014.  Diffraction phase microscopy: principles and applications in materials and life sciences. Adv. Opt. Photon.. 6(1):57-119.

Bhatt S, Gupta  M K., Khamaisi M, Martinez R, Gritsenko M A., Wagner B K., Guye P, Busskamp V, Shirakawa J, Wu G et al..  2016.  Preserved DNA Damage Checkpoint Pathway Protects against Complications in Long-Standing Type 1 Diabetes. Cell Metabolism. 22(2):239-252.

Blancas AA, Shih AJ, Lauer NE, McCloskey KE.  2011.  Endothelial cells from embryonic stem cells in a chemically defined medium.. Stem Cells Dev. 20(12):2153-61.

Blancas AA, Wong LE, Glaser DE, McCloskey KE.  2013.  Specialized tip/stalk-like and phalanx-like endothelial cells from embryonic stem cells.. Stem Cells Dev. 22(9):1398-407.

Boateng KA, Cyphersmith A, Fried GA, Sivaguru BS, Lu X, Seward C, Ko E, Kong HJoon, Sivaguru M.  2018.  3D Imaging of BABB Cleared Whole-Mount Organs Using Light Sheet Microscopy. Microscopy and Microanalysis. 2459(S1):1390-1391.

Boggs K, Venkatesan N, Mederacke I, Komatsu Y, Stice S, Schwabe RF, Mistretta CM, Mishina Y, Liu HXiang.  2016.  Contribution of Underlying Connective Tissue Cells to Taste Buds in Mouse Tongue and Soft Palate. PLoS. 11(1):e0146475.

Boopathy AV, Che PLin, Somasuntharam I, Fiore VF, E Cabigas B, Ban K, Brown ME, Narui Y, Barker TH, Yoon Y-S et al..  2014.  The modulation of cardiac progenitor cell function by hydrogel-dependent Notch1 activation.. Biomaterials. 35(28):8103-12.

Borau C, Kamm RD, García-Aznar JManuel.  2014.  A time-dependent phenomenological model for cell mechano-sensing.. Biomech Model Mechanobiol. 13(2):451-62.

Bratt-Leal AM, Kepple KL, Carpenedo RL, Cooke M, McDevitt TC.  2011.  Magnetic manipulation and spatial patterning of multi-cellular stem cell aggregates. Integr Biol (Camb). 3(12):1224-32.

Bratt-Leal AM, Nguyen A, Hammersmith KA, Singh A, McDevitt TC.  2013.  A microparticle approach to morphogen delivery within pluripotent stem cell aggregates.. Biomaterials. 34(30)):7227-7235.

Busskamp V, Lewis NE, Guye P, Ng AHM, Shipman SL, Byrne SM, Sanjana NE, Murn J, Li Y, Li S et al..  2014.  Rapid neurogenesis through transcriptional activation in human stem cells.. Mol Syst Biol. 10:760.

Byrne MB, Kimura Y, Kapoor A, He Y, Mattam KS, Hasan KM, Olson LN, Wang F, Kenis PJA, Rao CV.  2014.  Oscillatory behavior of neutrophils under opposing chemoattractant gradients supports a winner-take-all mechanism.. PLoS One. 9(1):e85726.

Callihan P, Ali MW, Salazar H, Quach N, Wu X, Stice SL, Hooks SB.  2014.  Convergent regulation of neuronal differentiation and Erk and Akt kinases in human neural progenitor cells by lysophosphatidic acid, sphingosine 1-phosphate, and LIF: specific roles for the LPA1 receptor.. ASN Neuro. 6(6)

Cambria E, Renggli K, Ahrens CC, Cook CD, Kroll C, Krueger AT, Imperiali B, Griffith LG.  2015.  Covalent Modification of Synthetic Hydrogels with Bioactive Proteins via Sortase-Mediated Ligation.. Biomacromolecules. 16(8):2316-26.

Campisi M, Shin Y, Osaki T, Hajal C, Chiono V, Kamm RD.  2018.  3D self-organized microvascular model of the human blood-brain barrier with endothelial cells, pericytes and astrocytes. Biomaterials. 180:117-129.

Cangellaris OV, Gillette MU.  2018.  Biomaterials for Enhancing Neuronal Repair. Frontiers in Materials. 5(21)

Cangellaris OV, Corbin EA, Froeter P, Michaels JA, Li X, Gillette MU.  2018.  Aligning Synthetic Hippocampal Neural Circuits via Self-Rolled-Up Silicon Nitride Microtube Arrays. ACS Applied Materials & Interfaces.

Cao K, Lailler N, Zhang Y, Kumar A, Uppal K, Liu Z, Lee EK, Wu H, Medrzycki M, Pan C et al..  2013.  High-resolution mapping of h1 linker histone variants in embryonic stem cells.. PLoS Genet. 9(4):e1003417.

Ceballos S, Kandel M, Sridharan S, Majeed H, Monroy F, Popescu G.  2015.  Active intracellular transport in metastatic cells studied by spatial light interference microscopy. Journal of Biomedical Optics. 20(11):111209.

Cella F., Weiss R, Siciliano V..  2018.  Engineering protein-protein devices for multilayered regulation of mRNA translation using orthogonal proteases in mammalian cells. Nature Communications. 9(4392)

Cervera J, Pietak A, Levin M, Mafe S.  2018.  Bioelectrical coupling in multicellular domains regulated by gap junctions: A conceptual approach. Bioelectrochemistry. 123:45-61.

Cha C, Jeong JHyun, Tang X, Zill AT, Prakash YS, Zimmerman SC, Saif T, Kong H.  2011.  Top-down synthesis of versatile polyaspartamide linkers for single-step protein conjugation to materials.. Bioconjug Chem. 22(12):2377-82.

Cha C, Antoniadou E, Lee M, Jeong JHyun, Ahmed WW, Saif TA, Boppart SA, Kong H.  2013.  Tailoring hydrogel adhesion to polydimethylsiloxane substrates using polysaccharide glue.. Angew Chem Int Ed Engl. 52(27):6949-52.

Cha C, Jeong JHyun, Shim J, Kong H.  2011.  Tuning the dependency between stiffness and permeability of a cell encapsulating hydrogel with hydrophilic pendant chains.. Acta Biomater. 7(10):3719-28.

Chan V, Neal D, Uzel SGM, Kim H, Bashir R, H Asada H.  2015.  Fabrication and characterization of optogenetic, multi-strip cardiac muscles. Lab Chip. 15(10):2258-2268.

Chan V, Jeong JHyun, Bajaj P, Collens MB, Saif T, Kong H, Bashir R.  2012.  Multi-material bio-fabrication of hydrogel cantilevers and actuators with stereolithography. Lab Chip. 12(1):88-98.

Chan V, Collens MB, Jeong JHyun, Park K, Kong H, Bashir R.  2012.  Directed cell growth and alignment on protein-patterned 3D hydrogels with stereolithography. Virtual and Physical Prototyping. 7(3):219-228.

Chan V, Raman R, Cvetkovic C, Bashir R.  2013.  Enabling microscale and nanoscale approaches for bioengineered cardiac tissue.. ACS Nano. 7(3):1830-7.

Chan V, H Asada H, Bashir R.  2014.  Utilization and control of bioactuators across multiple length scales.. Lab Chip. 14(4):653-70.

Chan V, Park K, Collens MB, Kong H, Saif T, Bashir R.  2012.  Development of Miniaturized Walking Biological Machines. Sci. Rep.. 2

Chan V, H Asada H, Bashir R.  2014.  Utilization and control of bioactuators across multiple length scales. Lab Chip. 14(4):653-670.

Chavez A, Scheiman J, Vora S, Pruitt BW, Tuttle M, Iyer EPR, Lin S, Kiani S, Guzman CD, Wiegand DJ et al..  2015.  Highly efficient Cas9-mediated transcriptional programming.. Nat Methods. 12(4):326-8.

Chen MB, Hajal C, Benjamin DC, Yu C, Azizgolshani H, Hynes RO, Kamm RD.  2018.  Inflamed neutrophils sequestered at entrapped tumor cells via chemotactic confinement promote tumor cell extravasation. Proceedings of the National Academy of Sciences. :7022-7027.

Chen MB, Whisler JA, Jeon JS, Kamm RD.  2013.  Mechanisms of tumor cell extravasation in an in vitro microvascular network platform.. Integr Biol (Camb). 5(10):1262-71.

Cheng AY, García AJ.  2013.  Engineering the matrix microenvironment for cell delivery and engraftment for tissue repair.. Curr Opin Biotechnol. 24(5):864-71.

Chien S, Bashir R, Nerem RM, Pettigrew R.  2015.  Engineering as a new frontier for translational medicine.. Sci Transl Med. 7(281):281fs13.

Cho Y, Oakland DN, Lee SAh, Schafer WR, Lu H.  2018.  On-chip functional neuroimaging with mechanical stimulation in Caenorhabditis elegans larvae for studying development and neural circuits. Lab on a Chip. 18:601-609.

Cho Y, Porto DA, Hwang H, Grundy LJ, Schafer WR, Lu H.  2017.  Automated and controlled mechanical stimulation and functional imaging in vivo in C. elegans. Lab on a Chip. 17:2609-2618.

Chu C, Kong H.  2012.  Interplay of cell adhesion matrix stiffness and cell type for non-viral gene delivery.. Acta Biomater. 8(7):2612-9.

Church GM, Elowitz MB, Smolke CD, Voigt CA, Weiss R.  2014.  Realizing the potential of synthetic biology.. Nat Rev Mol Cell Biol. 15(4):289-94.

Cintora P, Arikkath J, Kandel M, Popescu G, Best-Popescu C.  2017.  Cell density modulates intracellular mass transport in neural networks.. Cytometry A. 91(5):503-509.

Clay NE, Shin K, Ozcellkkale ltug, Lee MKyung, Rich MH, Kim DHyun, Han B, Kong H.  2017.  Modulation of Matrix Softness and Interstitial Flow for 3D Cell Culture Using a Cell-Microenvironment-on-a-Chip System. ACS Biomaterials Science and Engineering. 2(11)

Clay N, Baek K, Shkumatov A, Lai M-H, Smith CE, Rich M, Kong H.  2013.  Flow-mediated stem cell labeling with superparamagnetic iron oxide nanoparticle clusters.. ACS Appl Mater Interfaces. 5(20):10266-73.

Corbin EA, Dorvel BR, Millet LJ, King WP, Bashir R.  2014.  Micro-patterning of mammalian cells on suspended MEMS resonant sensors for long-term growth measurements.. Lab Chip. 14(8):1401-4.

Corbin EA, Millet LJ, Keller KR, King WP, Bashir R.  2014.  Measuring physical properties of neuronal and glial cells with resonant microsensors.. Anal Chem. 86(10):4864-72.

Corbin EA, Millet LJ, Pikul JH, Johnson CL, Georgiadis JG, King WP, Bashir R.  2013.  Micromechanical properties of hydrogels measured with MEMS resonant sensors.. Biomed Microdevices. 15(2):311-9.

Corbin EA, Kong F, Lim CTeck, King WP, Bashir R.  2015.  Biophysical properties of human breast cancer cells measured using silicon MEMS resonators and atomic force microscopy.. Lab Chip. 15(3):839-47.

Crecea V..  2013.  High Resolution Phase-Sensitive Magnetomotive Optical Coherence Microscopy for Tracking Magnetic Microbeads and Cellular Mechanics . Selected Topics in Quantum Electronics, IEEE Journal of. 20(2)

Cvetkovic C, Rich MH, Raman R, Kong H, Bashir R.  2017.  A 3D-printed platform for modular neuromuscular motor units. Microsystems and Nanoengineering. 3

Cvetkovic C, Ferrall-Fairbanks MC, Ko E, Grant L, Kong H, Platt MO, Bashir R.  2017.  Investigating the Life Expectancy and Proteolytic Degradation of Engineered Skeletal Muscle Biological Machines.. Sci Rep. 7(1):3775.

Cvetkovic C, Raman R., Chan V, Williams B.J, Tolish M., Bajaj P., Sakar M.S, H Asada H, Saif T, Bashir R.  2014.  Three-dimensionally printed biological machines powered by skeletal muscle. Proceedings of the National Academy of Sciences. 111(28):10125-10130.

D N, T H, Q W, R J, M P, X C, C E, P S, S D, K M et al..  2014.  Microscale Generation of Cardiospheres Promotes Robust Enrichment of Cardiomyocytes Derived from Human Pluripotent Stem Cells. Stem Cell Reports. 3(2)

Dar RD, Weiss R.  2018.  Perspective: Engineering noise in biological systems towards predictive stochastic design. APL Bioengineering. 2149(24):020901.

Davidsohn N, Beal J, Kiana S, Adler A, Yaman F, Li Y, Xie Z, Weiss R.  2014.  Accurate Predictions of Genetic Circuit Behavior from Part Characterization and Modular Composition. ACS Synthetic Biology.

De Souza EJ, Ahmed WW, Chan V, Bashir R, Saif T.  2013.  Cardiac myocytes' dynamic contractile behavior differs depending on heart segment. Biotechnol Bioeng. 110(2):628-36.

Dennis AM, Rhee WJong, Sotto D, Dublin SN, Bao G.  2012.  Quantum dot-fluorescent protein FRET probes for sensing intracellular pH. ACS Nano. 6(4):2917-24.

DeVolder RJ, Zill AT, Jeong JH, Kong H.  2012.  Microfabrication of proangiogenic cell-laden alginate-g-pyrrole hydrogels.. Biomaterials. 33(31):7718-26.

DeVolder RJ, Antoniadou E, Kong H.  2013.  Enzymatically cross-linked injectable alginate-g-pyrrole hydrogels for neovascularization. J Control Release. 172(1)

DeVolder RJ, Seo Y, Kong H.  2017.  Proangiogenic alginate-g-pyrrole hydrogel with decoupled control of mechanical rigidity and electrically conductivity. Biomaterials Research. 2118314232610397153332896812473161313233261950(1)

Diegmiller R, Montanelli H, Muratov CB, Shvartsman SY.  2018.  Spherical Caps in Cell Polarization.. Biophys J. 115(1):26-30.

Dixon TAnthony, Cohen E, Cairns DM, Rodriguez M, Mathews J, Jose RR, Kaplan DL.  2018.  Bioinspired Three-Dimensional Human Neuromuscular Junction Development in Suspended Hydrogel Arrays.. Tissue Eng Part C Methods. 24(6):346-359.

Donatelli CM, Tytell ED.  2018.  Prototype of a fish inspired swimming silk robot. 2018 IEEE International Conference on Soft Robotics (RoboSoft)2018 IEEE International Conference on Soft Robotics (RoboSoft).

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

Dsilva CJ, Lim B, Lu H, Singer A, Kevrekidis IG, Shvartsman SY.  2015.  Temporal ordering and registration of images in studies of developmental dynamics.. Development. 142(9):1717-24.

Dungan J, Koomson V.  2017.  Microfluidic platform to study intercellular connectivity through on-chip electrical impedance measurement. 2017 IEEE 60th International Midwest Symposium on Circuits and Systems (MWSCAS)2017 IEEE 60th International Midwest Symposium on Circuits and Systems (MWSCAS).

Dunn J, Qiu H, Kim S, Jjingo D, Hoffman R, Kim CWoo, Jang I, Son DJu, Kim D, Pan C et al..  2014.  Flow-dependent epigenetic DNA methylation regulates endothelial gene expression and atherosclerosis.. J Clin Invest. 124(7):3187-99.

Duportet X, Wroblewska L, Guye P, Li Y, Eyquen J, Riders J, Tharathorn R, Batt regory, Weiss R.  2014.  A platform for rapid prototyping of synthetic gene networks in mammalian cells..

Durant F, Lobo D, Hammelman J, Levin M.  2016.  Physiological controls of large-scale patterning in planarian regeneration: a molecular and computational perspective on growth and form.. Regeneration (Oxf). 3(2):78-102.

E W, R S, Stice SL.  2014.  The Role of Notch Signaling in Astrocyte and Oligodendrocyte Derivation. UGA Center for Undergraduate Research Opportunities Conference. :P.140.

E.Bates K, Lu H.  2016.  Optics-Integrated Microfluidic Platforms for Biomolecular Analyses. Biophysical Journal. 110(8):1684-1697.

Edington CD, Chen WLi Kelly, Geishecker E, Kassis T, Soenksen LR, Bhushan BM, Freake D, Kirschner J, Maass C, Tsamandouras N et al..  2018.  Interconnected Microphysiological Systems for Quantitative Biology and Pharmacology Studies.. Sci Rep. 8(1):4530.

Edwards C, Zhou R, Hwang S-W, McKeown SJ, Wang K, Bhaduri B, Ganti R, Yunker PJ, Yodh AG, Rogers JA et al..  2014.  Diffraction phase microscopy: monitoring nanoscale dynamics in materials science [Invited]. Applied Optics. 53(27):G33.

Edwards C, Bhaduri B., Nguyen TH, Griffin B.G, Pham H., Kim T, Popescu G, Goddard L.  2014.  Effects of spatial coherence in diffraction phase microscopy. Optics Express. 22(5)

Edwards C, McKeown SJ, Zhou J, Popescu G, Goddard L.  2014.  In situ measurements of the axial expansion of palladium microdisks during hydrogen exposure using diffraction phase microscopy. Optical Materials Express. 4(12):2559.

Edwards C, Bhaduri B, Griffin BG, Goddard L, Popescu G.  2014.  Epi-illumination diffraction phase microscopy with white light.. Opt Lett. 39(21):6162-5.

Entchev EV, Patel DS, Zhan M, Steele AJ, Lu H, Ch'ng QL.  2015.  A gene-expression-based neural code for food abundance that modulates lifespan.. Elife. 4:e06259.

Espinosa HD, Bao G, Ahmed WW, Rajagopalan J, Tofangchi A, Saif T.  2013.  Neuromechanics: The Role of Tension in Neuronal Growth and Memory. Nano and Cell Mechanics. :35–61.

Evans AA, Bhaduri B, Popescu G, Levine AJ.  2017.  Geometric localization of thermal fluctuations in red blood cells.. Proc Natl Acad Sci U S A. 114(11):2865-2870.

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Holle AW, Young JL, Van Vliet KJ, Kamm RD, Discher D, Janmey P, Spatz JP, Saif T.  2018.  Cell-Extracellular Matrix Mechanobiology: Forceful Tools and Emerging Needs for Basic and Translational Research.. Nano Lett. 18(1):1-8.

Hong M, Jo H, Ankeny RF, Holliday-Ankeny CJ, Kim H, Khang G, Nerem RM.  2013.  Influence of mesenchymal stem cells on the response of endothelial cells to laminar flow and shear stress.. Cells Tissues Organs. 198(4):289-99.

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Hu C, Sam R, Shan M, Nastasa V, Wang M, Kim T, Gillette M, Sengupta P, Popescu G.  2018.  Optical excitation and detection of neuronal activity. Journal of Biophotonics. :e201800269.

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Huang X.U., Zhang S.L.  2012.  Chemomechanics Control of Tearing Paths in Graphene. Physical Review B. 85(19):195453:1-6.

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Hwang S-W, Park G, Edwards C, Corbin EA, Kang S-K, Cheng H, Song J-K, Kim J-H, Yu S, Ng J et al..  2014.  Dissolution chemistry and biocompatibility of single-crystalline silicon nanomembranes and associated materials for transient electronics.. ACS Nano. 8(6):5843-51.

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Jeong JHyun, Chan V, Cha C, Zorlutuna P, Dyck C., K. Hsia J, Bashir R, Kong H.  2012.  "Living" microvascular stamp for patterning of functional neovessels; orchestrated control of matrix property and geometry. Adv Mater. 24(1):58-63,1.

Jeong JHyun, Liang Y, Jang M, Cha C, Chu C, Lee H, Jung W, Kim JWoong, Boppart SA, Kong H.  2013.  Stiffness-modulated water retention and neovascularization of dermal fibroblast-encapsulating collagen gel.. Tissue Eng Part A. 19(11-12):1275-84.

Jeong GSeok, Han S, Shin Y, Kwon GHan, Kamm RD, Lee S-H, Chung S.  2011.  Sprouting angiogenesis under a chemical gradient regulated by interactions with an endothelial monolayer in a microfluidic platform.. Anal Chem. 83(22):8454-9.

Jiayu L, Liam G, Kong H.  2016.  Tailoring Collagen-Based Matrices for Regenerative Medicine and Tissue Engineering. Material Matters: Sigma-Aldrich. 10(4)

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Kandel ME, Teng KWen, Selvin PR, Popescu G.  2017.  Label-Free Imaging of Single Microtubule Dynamics Using Spatial Light Interference Microscopy.. ACS Nano. 11(1):647-655.

Kandel ME, Fernandes D, Taylor AM, Shakir H, Best-Popescu C, Popescu G.  2017.  Three-dimensional intracellular transport in neuron bodies and neurites investigated by label-free dispersion-relation phase spectroscopy.. Cytometry A. 91(5):519-526.

Kang S-K, Hwang S-W, Yu S, Seo J-H, Corbin EA, Shin J, Wie DSeung, Bashir R, Ma Z, Rogers JA.  2015.  Biodegradable Thin Metal Foils and Spin-On Glass Materials for Transient Electronics. Advanced Functional Materials. 25(12):1789-1797.

Karig D, K. Martini M, Lu T, DeLateur NA, Goldenfeld N, Weiss R.  2018.  Stochastic Turing patterns in a synthetic bacterial population. Proceedings of the National Academy of Sciences. 11512808184118401118114116(26):6572-6577.

Kim T, Zhou R., Mir M, S Babacan D, Carney P.S, Goddard L, Popescu G.  2014.  White-light diffraction tomography of unlabeled live cells. Nature Photonics. 8

Kim C, Chung S, Yuchun L, Kim M-C, K Y Chan J, H Asada H, Kamm RD.  2012.  In vitro angiogenesis assay for the study of cell-encapsulation therapy.. Lab Chip. 12(16):2942-50.

Kim T, Zhou R, Goddard LL, Popescu G.  2016.  Solving inverse scattering problems in biological samples by quantitative phase imaging. Laser & Photonics Reviews. 10(1):13-39.

Kim M.-C., Abeyaratne R., Kamm R.D., Asada H.H..  2017.  Dynamic modeling of cancer cell migration in an extracellular matrix fiber network. American Control Conference (ACC), 2017 . :779-784.

Kim M-C, Silberberg YR, Abeyaratne R, Kamm RD, H Asada H.  2018.  Computational modeling of three-dimensional ECM-rigidity sensing to guide directed cell migration.. Proc Natl Acad Sci U S A. 115(3):E390-E399.

Kim M-C, Neal DM, Kamm RD, H Asada H.  2013.  Dynamic modeling of cell migration and spreading behaviors on fibronectin coated planar substrates and micropatterned geometries.. PLoS Comput Biol. 9(2):e1002926.

Kim T, Zhou R..  2014.  Quantitative Phase Imaging (QPI): Metrology Meets Biology. Photonics Journal, IEEE. PP(99)

Kim M-C, Whisler J, Silberberg YR, Kamm RD, H Asada H.  2015.  Cell Invasion Dynamics into a Three Dimensional Extracellular Matrix Fibre Network.. PLoS Comput Biol. 11(10):e1004535.

Kim W-S, Lee S, Yoon Y-S.  2013.  Cardiovascular repair with bone marrow-derived cells.. Blood Res. 48(2):76-86.

Kim T, Sridharan S, Kajdacsy-Balla A, Tangella K, Popescu G.  2013.  Gradient field microscopy for label-free diagnosis of human biopsies [Invited].. Appl Opt. 52(1):A92-6.

Kim M-C, Kim C, Wood LB, Neal D, Kamm RD, H Asada H.  2012.  Integrating focal adhesion dynamics, cytoskeleton remodeling, and actin motor activity for predicting cell migration on 3D curved surfaces of the extracellular matrix. Integr Biol (Camb). 4(11):1386-97.

Kim T., Popescu G.  2014.  Quantitative phase imaging of cells in 2-, 3- and 4-D. Optics & Photonics News. 12(34)

Kim H, Han JWoong, Lee JYoon, Choi YJin, Sohn Y-D, Song M, Yoon Y-S.  2015.  Diabetic Mesenchymal Stem Cells Are Ineffective for Improving Limb Ischemia Due to Their Impaired Angiogenic Capability.. Cell Transplant. 24(8):1571-84.

Kim M.C., Abeyaratne R., Kamm R.D., Asada H.H.  2017.  Dynamic modeling of cancer cell migration in an extracellular matrix fiber network . American Control Conference (ACC), 2017 .

Kim T, Goddard L, Popescu G.  2014.  Inverse scattering solutions using low-coherence light.. Opt Lett. 39(15):4494-7.

Kim H, Kim JJ, Yoon Y-S.  2012.  Emerging therapy for diabetic neuropathy: cell therapy targeting vessels and nerves.. Endocr Metab Immune Disord Drug Targets. 12(2):168-78.

Kim M-C, Silberberg YR, Abeyaratne R, Kamm RD, H. Asada H.  2018.  Computational modeling of three-dimensional ECM-rigidity sensing to guide directed cell migration. Proceedings of the National Academy of Sciences. 1151113575455(3):E390-E399.

Kim T, Zhu R, Nguyen TH, Edwards C, Goddard L, Popescu G.  2013.  Deterministic signal associated with a random field.. Opt Express. 21(18):20806-20.

Kinney MA, Hookway TA, Wang Y, McDevitt TC.  2014.  Engineering three-dimensional stem cell morphogenesis for the development of tissue models and scalable regenerative therapeutics. Annals of Biomedical Engineering. 42(2)):352-67.

Kinney MA, Sargent CY, McDevitt TC.  2013.  Temporal modulation of β-catenin signaling by multicellular aggregation kinetics impacts embryonic stem cell cardiomyogenesis.. Stem Cells Dev. 22(19):2665-77.

Kinney MA, Saeed R, McDevitt TC.  2014.  Mesenchymal morphogenesis of embryonic stem cells dynamically modulates the biophysical microtissue niche.. Sci Rep. 4:4290.

Kinney MA, Saeed R, McDevitt TC.  2012.  Systematic analysis of embryonic stem cell differentiation in hydrodynamic environments with controlled embryoid body size.. Integr Biol (Camb). 4(6):641-50.

Kinney MA, McDevitt TC.  2013.  Emerging strategies for spatiotemporal control of stem cell fate and morphogenesis.. Trends Biotechnol. 31(2):78-84.

Kitada T, DiAndreth B, Teague B, Weiss R.  2018.  Programming gene and engineered-cell therapies with synthetic biology. Science. 3591685551181155046511341661135(6376):eaad1067.

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Kniss A, Lu H, Jones DP, Kemp ML.  2013.  A microfluidic systems biology approach for live single-cell mitochondrial ROS imaging.. Methods Enzymol. 526:219-30.

Ko E, Yu S, Mahmassami Z, Boppart M, Im SG, Bashir R, Kong H.  Submitted.  Reciprocity between Nanogrooved Substrate-Mediated Muscle Maturity and Neurons toward Neuromuscular Junction Formation.

Kojima T, Takayama S.  2018.  Membraneless Compartmentalization Facilitates Enzymatic Cascade Reactions and Reduces Substrate Inhibition. ACS Applied Materials & Interfaces. 10(38):32782-32791.

Kothapalli CR, Kamm RD.  2013.  3D matrix microenvironment for targeted differentiation of embryonic stem cells into neural and glial lineages.. Biomaterials. 34(25):5995-6007.

Krishnamoorthy M, Gerwe BA, Scharer CD, Sahasranaman V, Eilertson CD, Nash RJ, Usta SNaz, Kelly S, Rose M, Peraza R et al..  2013.  Ethanol alters proliferation and differentiation of normal and chromosomally abnormal human embryonic stem cell-derived neurospheres.. Birth Defects Res B Dev Reprod Toxicol. 98(3):283-95.

Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ et al..  2015.  Integrative analysis of 111 reference human epigenomes.. Nature. 518(7539):317-30.

L JCMVega, Lee MKyung, Qin EC, Rich M, Lee KYoung, Kim DHyun, Chung HJung, Leckband DE, Kong H.  2016.  Three Dimensional Conjugation of Recombinant N-Cadherin to a Hydrogel for Anisotropic Neural Growth.. J Mater Chem B. 4(42):6803-6811.

L JCMVega, Lee MKyung, Jeong JHyun, Smith CE, Lee KYoung, Chung HJung, Leckband DE, Kong H.  2014.  Recapitulating cell-cell adhesion using N-cadherin biologically tethered to substrates.. Biomacromolecules. 15(6):2172-9.

Lee S, Yoon Y-S.  2013.  Revisiting cardiovascular regeneration with bone marrow-derived angiogenic and vasculogenic cells.. Br J Pharmacol. 169(2):290-303.

Lee MKyung, Rich MH, Baek K, Lee J, Kong H.  2015.  Bioinspired Tuning of Hydrogel Permeability-Rigidity Dependency for 3D Cell Culture. Scientific Reports. 5:8948.

Lee YJae, Cintora P, Arikkath J, Akinsola O, Kandel M, Popescu G, Best-Popescu C.  2017.  Quantitative assessment of neural outgrowth using spatial light interference microscopy.. J Biomed Opt. 22(6):66015.

Lee MKyung, Rich MH, Lee J, Kong H.  2015.  A bio-inspired, microchanneled hydrogel with controlled spacing of cell adhesion ligands regulates 3D spatial organization of cells and tissue.. Biomaterials. 58:26-34.

Lee YJae, Cintora P, Arikkath J, Akinsola O, Kandel M, Popescu G, Best-Popescu C.  2017.  Quantitative assessment of neural outgrowth using spatial light interference microscopy. Journal of Biomedical Optics. 22(6):066015.

Lee MKyung, Rich MH, Shkumatov A, Jeong JHyun, Boppart MD, Bashir R, Gillette M.U., Lee J, Kong H.  2015.  Glacier Moraine Formation-Mimicking Colloidal Particle Assembly in Microchanneled, Bioactive Hydrogel for Guided Vascular Network Construction. Advanced Healthcare Materials. 4(2):195-201.

Lee S, Valmikinathan CM, Byun J, Kim S, Lee G, Mokarram N, S Pai B, Um E, Bellamkonda RV, Yoon Y-S.  2015.  Enhanced therapeutic neovascularization by CD31-expressing cells and embryonic stem cell-derived endothelial cells engineered with chitosan hydrogel containing VEGF-releasing microtubes.. Biomaterials. 63:158-67.

Lee S-J, Park C, Lee JYoon, Kim S, Kwon PJae, Kim W, Jeon YHeui, Lee E, Yoon Y-S.  2015.  Generation of pure lymphatic endothelial cells from human pluripotent stem cells and their therapeutic effects on wound repair.. Sci Rep. 5:11019.

Lee JEun, Zamdborg L, Southey BR, Atkins N, Mitchell JW, Li M, Gillette MU, Kelleher NL, Sweedler JV.  2013.  Quantitative peptidomics for discovery of circadian-related peptides from the rat suprachiasmatic nucleus.. J Proteome Res. 12(2):585-93.

Levario TJ, Zhao C, Rouse T, Shvartsman SY, Lu H.  2015.  An integrated platform for large-scale data collection and precise perturbation of live Drosophila embryos. Nature Research Journal. 6:21366.

Levario TJ, Lim B, Shvartsman SY, Lu H.  2016.  Microfluidics for High-Throughput Quantitative Studies of Early Development.. Annu Rev Biomed Eng. 18:285-309.

Levin M.  Submitted.  Selective Depolarization Of Transmembrane Potential Alters Muscle Patterning and Muscle Cell Localization In Embryonic Xenopus Laevi.

Levin M.  2013.  Reprogramming cells and tissue patterning via bioelectrical pathways: molecular mechanisms and biomedical opportunities.. Wiley Interdiscip Rev Syst Biol Med. 5(6):657-76.

Levin M.  Submitted.  Changes to K+-channel-dependent patterning during early neurulation: a mechanism underlying craniofacial anomalies in KCNJ2-associated Andersen-Tawil Syndrome.. Human Mutation.

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