Archival Publications

(Peer-reviewed journal articles, books, book chapters, patents)


Author names in bold font indicate members of CASE-BML Laboratory


  1. 3-D Microwell Array System for Culturing Virus Infected Tumor Cells

El Assal R., U. A. Gurkan, P. Chen, F. Juillard, A. Tocchio, T. Chinnasamy, C. Beauchemin, S. Unluisler, S. Canikyan, A. Holman, S. Srivatsa, K. M. Kaye, U. Demirci

Scientific Reports, 2016, 6: 39144


  1. Emerging Point-of-Care Technologies for Sickle Cell Disease Screening and Monitoring

Alapan Y., A. Fraiwan, E. Kucukal, M. N. Hasan, R. Ung, M. Kim, I. Odame, J. A. Little, U. A. Gurkan

Expert Review of Medical Devices, 2016, 13(12), 1073-1093


  1. Anisotropically Stiff 3D Micropillar Niche Induces Extraordinary Cell Alignment and Elongation

Alapan Y., M. Younesi, O. Akkus, U. A. Gurkan

Advanced Healthcare Materials, 2016, 5: 1884-1892


  1. Enhancing the Angular Sensitivity of Plasmonic Sensors Using Hyperbolic Metamaterials

Sreekanth K. V., Y. Alapan, M. ElKabbash, A. M. Wen, E. Ilker, M. Hinczewski, U. A. Gurkan, N. F. Steinmetz, G. Strangi

Advanced Optical Materials, 2016, 4: 1767-1772


  1. A multiband Perfect Absorber Based on Hyperbolic Metamaterials

Sreekanth K. V., M. ElKabbash, Y. Alapan, A. R. Rashed, U. A. Gurkan, G. Strangi

Scientific Reports, 2016, 6: 26272


  1. Extreme Sensitivity Biosensing Platform Based on Hyperbolic Metamaterials

Sreekanth K. V., Y. Alapan, M. ElKabbash, E. Ilker, M. Hinczewski, U. A. Gurkan, A. De Luca, G. Strangi

Nature Materials, 2016, 15: 621-627


  1. SCD Biochip: A Functional Red Blood Cell Adhesion Assay for Monitoring Sickle Cell Disease

Alapan Y., C. Kim, A. Adhikari, K. E. Gray, E. Gurkan-Cavusoglu, J. A. Little, U. A. Gurkan

Translational Research, 2016, 173: 74-91


  1. Dynamic Deformability of Sickle Red Blood Cells in Microphysiological Flow

Alapan Y., Y. Matsuyama, J. A. Little, U. A. Gurkan

Technology, 2016, Vol. 4, No. 02, pp. 71-79


  1. Application of Hydrogels in Ocular Tissue Engineering

Kishore V., Y. Alapan, R. Iyer, R. Mclay, U. A. Gurkan

Gels Handbook Fundamentals, Properties and Applications, Volume 2: Applications of Hydrogels in Regenerative Medicine, World Scientific Publishing, 2016


  1. Gels Handbook Fundamentals, Properties and Applications
    Volume 2: Applications of Hydrogels in Regenerative Medicine

Edited by: Mohammad Reza Abidian (University of Houston, USA), Umut Atakan Gurkan (Case Western Reserve University, USA), Faramarz Edalat (Emory University, USA)

World Scientific Publishing, 2016



  1. Micro- and nanodevices integrated with biomolecular probes

Alapan Y., K. Icoz, U. A. Gurkan

Biotechnology Advances, 2015, 33(8), 1727-1743


  1. Three-Dimensional Printing Based Hybrid Manufacturing of Microfluidic Devices

Alapan H., M. N. Hasan, R. Shen, U. A. Gurkan

Journal of Nanotechnology in Engineering and Medicine, 2015, 6(2), 021007


  1. Paper and Flexible Substrates as Materials for Biosensing Platforms to Detect Multiple Biotargets

Shafiee H., W. Asghar, F. Inci, M. Yuksekkaya, M. Jahangir, M. H. Zhang, N.G. Durmus, U. A. Gurkan, D. R. Kuritzkes, U. Demirci

Scientific Reports, 2015, 5: 8719


  1. Functional Maintenance of Differentiated Embryoid Bodies in Microfluidic Systems: A Platform for Personalized Medicine

Guven S., J. S. Lindsey, I. Poudel I, S. Chinthala, M. D. Nickerson, B. Gerami-Naini, U. A. Gurkan, R. M. Anchan, U. Demirci

Stem Cells Translational Medicine, 2015, 4:1-8




  1. Heterogeneous Red Blood Cell Adhesion and Deformability in Sickle Cell Disease

Alapan Y., J. A. Little, U. A. Gurkan

Scientific Reports, 2014, 4: 7173


  1. Micro and Nano-scale Technologies for Cell Mechanics

Unal M., Y. Alapan, H. Jia, A. G. Varga, K. Angelino, M. Aslan, I. Sayin, C. Han, Y. Jiang, Z. Zhang, U. A. Gurkan

Nanobiomedicine, 2014, 4: 7173


  1. An RF/Microwave Microfluidic Sensor Based on a 3D Capacitive Structure with a Floating Electrode for Miniaturized Dielectric Spectroscopy

Suster, M. A., B. Blackburn, U. A. Gurkan, P. Mohseni

IEEE Sensors, 2014, 1784-1787


  1. Bio-Inspired Cryo-Ink Preserves Red Blood Cell Phenotype and Function During Nanoliter Vitrification

El Assal R., S. Guven, U. A. Gurkan, I. Gozen, H. Shafiee, S. Dalbeyler, N. Abdalla, G. Thomas, W. Fuld, B. M. W. Illigens, J. Estanislau, J. Khoory, R. Kaufman, C. Zylberberg, N. Lindeman, Q. Wen, I. Ghiran, U. Demirci

Advanced Materials, 2014, 26 (33), 5815-5822


  1. Evaluation of Epithelial Chimerism After Bone Marrow Mesenchymal Stromal Cell Infusion in Intestinal Transplant Patients

Kilinc S., U. A. Gurkan, S. Guven, G. Koyuncu, S. Tan, C. Karaca, O. Ozdogan, M. Dogan, C. Tugmen, E. E. Pala, U. Bayol, M. Baran, Y. Kurtulmus, I. Pirim, E. Kebapci, U. Demirci

Transplantation proceedings, 2014, 46 (6), 2125-2132


  1. Making the Smallest Medical Devices

Alapan Y., S. Ismail, U. A. Gurkan

Mechanical Engineering Magazine, 2014, 136 (2), 36-38


  1. Engineering Anisotropic Biomimetic Fibrocartilage Microenvironment by Bioprinting Mesenchymal Stem Cells in Nanoliter Gel Droplets

Gurkan U. A., R. El Assal, S. E. Yildiz, Y. Sung, A. J. Trachtenberg, W. P. Kuo, U. Demirci

Molecular Pharmaceutics, 2014, PMID: 24495169


  1. Micro-a-fluidics ELISA for Rapid CD4 Cell Count at the Point-of-Care

Wang S. Q., S. Tasoglu, P. Z. Chen, M. Chen, R. Akbas, S. Wach, C. I. Ozdemir, U. A. Gurkan, F. F. Giguel, D. R. Kuritzkes, U. Demirci

Scientific Reports (Nature Publishing), 2014, 4:3796, PMID: 24448112


  1. Use of commercial off-the-shelf digital cameras for scientific data acquisition and scene-specific color calibration

Akkaynak D., T. Treibitz, B. Xiao, U. A. Gurkan, J. J. Allen, U. Demirci, R. T. Hanlon

Journal of the Optical Society of America A, 2014, 31(2), 312-321, PMID: 24562030




  1. Simple precision creation of digitally specified, spatially heterogeneous, engineered tissue architectures

Gurkan U. A.*, Y. Fan*, F. Xu, B. Erkmen, E. S. Urkac, G. Parlakgul, J. Bernstein, W. Xing, E. S. Boyden, U. Demirci

Advanced Materials, 2013, 25(8), 1192-1198, PMID:23192949

Highlighted in MIT News and Hurriyet


  1. In Vitro Three-Dimensional Cancer Culture Models

Asghar W., H. Shafiee, P. Chen, S. Tasoglu, S. Guven, U. A. Gurkan, U. Demirci

Cancer Targeted Drug Delivery, 2013, pp 635-665


  1. Nanoplasmonic Biosensing Platform for Multiple Pathogen Detection

Inci F., O. Tokel, S. Wang, U. A. Gurkan, D. R. Kuritzkes, U. Demirci

IEEE Transducers, 2013, 2431 - 2434, DOI: 10.1109/Transducers.2013.6627297


  1. Flow induces epithelial-mesenchymal transition, cellular heterogeneity and biomarker modulation in 3D ovarian cancer nodules

Rizvi I., U. A. Gurkan, S. Tasoglu, N. Alagic, J. P. Celli, L. B. Mensah, Z. Mai, U. Demirci, T. Hasan

Proceedings of the National Academy of Sciences (PNAS), 2013, PMID:23645635


  1. Manipulating biological agents and cells in microscale volumes for applications in medicine

Tasoglu S., U. A. Gurkan, S. Wang, U. Demirci

Chemical Society Reviews, 2013, PMID:23575660


  1. Paramagnetic levitational assembly of hydrogels

Tasoglu S., D. Kavaz, U. A. Gurkan, S. Guven, P. Chen, R. Zheng, U. Demirci

Advanced Materials, 2013, 25(8), 1137-1143, PMID:23288557

Cover Article in Advanced Materials


  1. Nanoplasmonic Quantitative Detection of Intact Viruses from Unprocessed Whole Blood

Inci F.*, O. Tokel*, S. Wang*, U. A. Gurkan, S. Tasoglu, D. R. Kuritzkes, U. Demirci

ACS Nano, 2013, PMID: 23688050


  1. Exhaustion of Racing Sperm in Nature Mimicking Microfluidic Channels During Sorting

Tasoglu S., H. Safaee, X. Zhang, J. L. Kingsley, P. N. Catalano, U. A. Gurkan, A. Nureddin, E. Kayaalp, R. M. Anchan, R. L. Maas, E. Tüzel, U. Demirci

Small, 2013, PMID: 23677651




  1. Smart interface materials integrated with microfluidics for on-demand local capture and release of cells

Gurkan U. A., S. Tasoglu, D. Akkaynak, O. Avci, S. Unluisler, S. Canikyan, N. MacCallum, U. Demirci

Advanced Healthcare Materials,  2012, 1(5), 661-668


  1. Emerging technologies for assembly of microscale hydrogels

Gurkan U. A.*, S. Tasoglu*, D. Kavaz, M. C. Demirel, U. Demirci

Advanced Healthcare Materials, 2012, 1(2), 149-158


  1. Immune and inflammatory pathways are involved in inherent bone marrow ossification

Gurkan U. A., V. Kishore, R. Golden, C. Riley, J. Adamec, O. Akkus

Clinical Orthopedics and Related Research, 2012, 470, 2528–2540


  1. Efficient on-chip isolation of HIV subtypes

Wang A. S.*, M. Esfahani*, U. A. Gurkan, F. Inci, U. Demirci

Lab on A Chip, 2012, 12, 1508-1515


  1. Release of magnetic nanoparticles from cell-encapsulating biodegradable nanobiomaterials

Xu F., F. Inci, O. Mullick, U. A. Gurkan, Y. Sung, D. Kavaz, B. Q. Li, E. B. Denkbas, U. Demirci

ACS Nano, 2012, 6(8), 6640-6649


  1. Portable microfluidic chip for detection of Escherichia coli in produce and blood

Wang A. S.*, Inci F.*, T. L. Chaunzwa, A. Ramanujam, A. Vasudevan, S. Subramanian, A. Ip, B. Sridharan, U. A. Gurkan, U. Demirci

International Journal of Nanomedicine, 2012, 7, 2591-2600


  1. Prediction and control of the number of cells in microdroplets with stochastic modeling

Ceyhan E.*, F. Xu*, U. A. Gurkan*, A. E. Emre, E. S. Turali, M. Wu, R. El Assal, A. Acikgenc, U. Demirci

Lab on a Chip, 2012, 12, 4884-4893




  1. Editorial: Scaffold-free cell-based approaches in biomedicine and biotechnology

Gurkan U. A., F. Xu

Biotechnology Journal 2011, 6 (12), 1426-1427


  1. A Scaffold-free multicellular three-dimensional in vitro model of osteogenesis

Gurkan U. A., V. Kishore, K. W. Condon, T. M. Bellido, O. Akkus

Calcified Tissue International, 2011, 88(5), 388-401


  1. Ossifying Bone Marrow Explant Culture as a Three-dimensional Mechanoresponsive In Vitro Model of Osteogenesis

Gurkan U. A., A. Krueger, O. Akkus

Tissue Engineering Journal Part A, 2011, 17(3-4), 417-428


  1. System and method for prevention of hypertrophic scars by actuable patch

Akkus O., U. A. Gurkan, A. Aref, R. Meldrum

International Patent, World Intellectual Property Organization, Issued: 29

December 2011, WO 2011/163673 A2


  1. Transport of a soft cargo on a nanoscale ratchet

Sekeroglu K.*, U. A. Gurkan*, U. Demirci, M. C. Demirel

Applied Physics Letters, 2011, 99, 063703


  1. Controlled viable release of selectively captured label-free cells in microchannels

Gurkan U. A., T. Anand, H. Tas, D. Elkan, A. Akay, H. O. Keles, U. Demirci

Lab on a Chip, 2011, 11, 3979-3989

Top 10 most accessed article in October 2011 in Lab on a Chip


  1. Miniaturized lensless imaging systems for cell and microorganism visualization in point-of-care testing

Gurkan U. A.*, S. Moon*, H. Geckil, S. Wang, F. Xu, T.J. Lu, U. Demirci

Biotechnology Journal, 2011. 6(2), 138-149


  1. Enumeration of CD4+ T-cells using a portable microchip count platform in Tanzanian HIV-infected patients

Moon S., U. A. Gurkan, J. Blander, W. W. Fawzi, S. Aboud, F. Mugusi, D. Kuritzkes, U. Demirci

PloS One, 2011, 6(7) e21409

Highlighted in: Lab on A Chip, 2011, 11, 3211-3213


  1. Lensless imaging for simultaneous microfluidic sperm monitoring and tracking

Zhang X.*, P. I. Khimji*, U. A. Gurkan, H. Safaee, P. Catalano, H. O. Keles, E. Kayaalp, U. Demirci

Lab on A Chip, 2011, 11, 2535-2540

Highlighted in Nature Photonics, 5, 512 (2011)


  1. Statistical modeling of single target cell encapsulation

Moon S, E. Ceyhan, U. A. Gurkan, U. Demirci

PloS One, 2011, 6(7): e21580


  1. Emerging Technologies in Medical Applications of Minimum Volume Vitrification

Zhang X., P. N. Catalono, U. A. Gurkan, P. I. Khimji, U. Demirci

Nanomedicine, 2011, 6(6), 1115-1129


  1. Nanoliter Droplet Vitrification for Oocyte Cryopreservation

Zhang X., P. I. Khimji, L. Shao, H. Safaee, K. Desai, H. O. Keles, U. A. Gurkan, E. Kayaalp, A. Nureddin, R. M. Anchan, R. L. Maas, U. Demirci

Nanomedicine, 2011, 7(4), 553-564


  1. Embryonic stem cell printing for controllable uniform sized embryoid body formation

Xu F., B. Sridharan, S. Wang, U. A. Gurkan, B. Syverud, U. Demirci

Biomicrofluidics, 2011, 5, 022207


  1. Living bacterial sacrificial porogens for porous hydrogel scaffolds

Xu F., B. Sridharan, S. Wang, N. G. Durmus, A. S. Yavuz, U. A. Gurkan, U. Demirci

PLoS One, 2011 6(4): e19344


  1. Microengineering Methods for Cell Based Microarrays and High Throughput Drug Screening Applications

Xu F., J. Wu, S. Wang, N. G. Durmus, U. A. Gurkan, U. Demirci

Biofabrication, 2011 Sep; 3(3): 034101


  1. Automated and Adaptable Quantification of Cellular Alignment from Microscopic Images for Tissue Engineering Applications

Xu F., Beyazoglu T., E. Hefner, U. A. Gurkan, U. Demirci

Tissue Engineering Part C, 2011, 17(6), 641-649


  1. Three-dimensional magnetic assembly of microscale hydrogels

Xu F., C. M. Wu, V. Rengarajan, T. D. Finley, H. O. Keles, Y. Sung, B. Q. Li, U. A. Gurkan, U. Demirci

Advanced Materials, 2011, 23(37), 4254–4260


  1. The assembly of cell-encapsulating microscale hydrogels using acoustic waves

Xu F., T. D. Finley, M. Turkaydin, Y. Sung, U. A. Gurkan, R. Guldiken, U. Demirci

Biomaterials, 2011, 32(31):7847-55




  1. Comparison of morphology, orientation, and migration of tendon derived fibroblasts and bone marrow stromal cells on electrochemically aligned collagen constructs

Gurkan U. A., X. Cheng*, V. Kishore*, J. A. Uquillas, O. Akkus

Journal of Biomedical Materials Research Part A, 2010, 94A(4), 1070-1079

  1. The sequential production profiles of growth factors and their relations to bone volume in ossifying bone marrow explants

Gurkan U. A., J. Gargac, O. Akkus

Tissue Engineering Journal Part A, 2010, 16(7), 2295-2306


  1. Engineering of bone marrow in vitro for investigating the role of growth factors and their mechanoresponsiveness in osteogenesis

Gurkan U. A.

PhD Dissertation, Purdue University, Indiana, 2010, 3413893



  1. Osteogenic Effects of Preparations of rat pulmonary alveolar macrophages challenged with staphylococcus aureus

Meldrum R. D., U. A. Gurkan, S. A. Kattaya, O. Akkus

Indiana Orthopaedic Journal, 2009, Vol. 3, 28-29



- 2008

  1.  The mechanical environment of bone marrow

Gurkan U. A., O. Akkus

Annals of Biomedical Engineering, 2008, 36(12), 1978-1991


  1. An electrochemical fabrication process for the assembly of anisotropically oriented collagen bundles

Cheng X., U. A. Gurkan, C. J. Dehen, M. P. Tate, H. W. Hillhouse, G. J. Simpson, O. Akkus

Biomaterials, 2008, 29(22), 3278-3288


  1. State estimator design for multicomponent batch distillation columns

Yildiz U., U. A. Gurkan, C. Ozgen, K. Leblebicioglu

Chemical Engineering Research & Design, 2005. 83(A5), 433-444


* indicates equal contribution of authors





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CASE-BML members are listed with bold font text

These manuscripts are provided here to the academic community for using in research and teaching. Copyrights of these papers remain with the publishers as listed in the publcations.