Journal Articles:​

1. Strasser, M., Gibbs, D.L., Gascard, P., Bons, J., Hickey, J.W., Schürch, C.M., Tan, Y., Black, S., Chu, P.,Özkan, A., Basisty, N.,  ... & Ferri, L. L. (2025). Concerted epithelial and stromal changes during progression of Barrett's Esophagus to invasive adenocarcinoma exposed by multi-scale, multi-omics analysis. Developmental Cell doi: 10.1016/j.devcel.2025.06.034

2. Gouveia, Z., Özkan, A., Giannobile, W. V., Santerre, J. P., & Wu, D. T. (2025). Oral tissue spheroid, organoid, and organ‐on chip microphysiological modeling strategies towards enhanced emulation of health and disease. Bioengineering & Translational Medicine, e70020. doi.org/10.1002/btm2.70020 

3. Wareham-Mathiassen, S.; Jolly, P.; Radha Shanmugam, N.; Jagannath, B.; Prabhala, P.; Zhai, Y.; Ozkan, A.; Naziripour, A.; Singh, R.; Bengtsson, H.; et al. (2025) An Antimicrobial and Antifibrotic Coating for Implantable Biosensors, 15, 171. doi:10.3390/bios

4. Özkan, A., et al. (2024), Inflammatory Bowel Disease Drivers Revealed in Human Organ Chips, medRxiv, doi:10.1101/2024.12.05.24318563 

5. Özkan, A., LoGrande, N. T., Feitor, J. F. Goyal, G., Ingber, D. (2024). Intestinal Organ Chips for Disease Modelling and Personalized Medicine, Nature Reviews Gastroenterology & Hepatology, 21, 751–773 doi:10.1038/s41575-024-00968-3

6. He, J., Zhang, C., Özkan, A., Feng, T, Duan, P., Wang, S. , Yang, X., Liu, X. Patient-derived tumor models and their distinctive applications in personalized drug therapy, Mechanobiology in Medicine doi: 10.1016/j.mbm.2023.100014

7. Özkan, A., Stolley, D. L., Cressman, E., McMillin, M., Yankeelov, T., Rylander, M. N. (2023). Vascularized Hepatocellular Carcinoma on a Chip to Control Chemoresistance through Cirrhosis, Inflammation and Metabolic Activity. Small Structures. 2200403. doi:10.1002/sstr.202200403

8. Izadifar Z., Sontheimer-Phelps A., Lubamba B. A., Bai H., Fadel C., Stejskalova A., Özkan A., Dasgupta Q., Bein A., Junaid A., Gulati A., Mahajan G., Kim S., LoGrande N., Naziripour A., Ingber D. E. (2022), Modeling mucus physiology and pathophysiology in human organs-on-chips, Advanced Drug Delivery Reviews. (28), 114542.  doi:10.1016/j.addr.2022.114542

9. Schönfeld, S., Özkan, A., Scarabosio, L., Rylander, M. N., & Kuttler, C. (2022). Environmental stress level to model tumor cell growth and survival. Mathematical Biosciences and Engineering, 19(6) 5509-5545. doi:10.3934/mbe.2022258 

10. Grant, J., Özkan, A., Oh, C., Y., Majahan, G., Prantil-Baun, R., Ingber, D. E. (2021) Simulating Drug Concentrations in PDMS Microfluidic Organ Chips, Lab on a chip, 21(18), 3509-3519. (Selected in HOT articles of 2021), doi:10.1039/D1LC00348H

11. Özkan, A., Stolley, D., Cressman, E. N., McMillin, M., DeMorrow, S., Yankeelov, T. E., Rylander, M. N.(2020) Tumor Microenvironment Alters Chemoresistance of Hepatocellular Carcinoma Through CYP3A4 Metabolic Activity, Frontiers in Oncology (Covered in Special Issue: Tumor Metabolism in Cancer Therapy Resistance), 11, 662135. doi:10.3389/fonc.2021.662135.

12. Stolley, D. L., Crouch, A. C., Özkan, A., Seeley, E. H., Whitley, E. M., Rylander, M. N., Cressman, E. N.  (2020) Combining Chemistry and Engineering for Hepatocellular Carcinoma: Nano-Scale and Smaller Therapies, Pharmaceutics, 12(12), 1243, doi:10.3390/pharmaceutics12121243.

13. Özkan, A., Stolley, D., Cressman, E. N., McMillin, M., DeMorrow, S., Yankeelov, T. E., Rylander, M. N.(2020) The Influence of Chronic Liver Diseases on Hepatic Vasculature: A Liver-on-a-chip Review, Micromachines, 11(5):487, doi:10.3390/mi11050487

14. Chakraborty, S., Özkan, A., Rylander, M. N., Woodward, W. A., & Vlachos, P. (2019) Mixture theory study characterizing nanoparticle transport in breast cancer tissues, Journal of biological engineering, 13 (1), 46, doi:10.1186/s13036-019-0178-z

15. Özkan, A., Ghousifam, N., Hoopes, P. J., Yankeelov, T. E., Rylander, M. N. (2019) In Vitro Vascularized Liver and Tumor Tissue Microenvironments on a Chip for Dynamic Determination of Nanoparticle Transport and Toxicity, Biotechnology and Bioengineering, 116 (5), doi:10.1002/bit.26919.

16. Lima, E.A.B.F., Ghousifam, N., Özkan, A., Oden, J.T., Shahmoradi, A., Rylander, M.N., Wohlmuth, B. and Yankeelov, T.E. (2018) Calibration of Multi-Parameter Models of Avascular Tumor Growth Using Time Resolved Microscopy Data, Scientific Reports, 8 (1), 14558, doi:10.1038/s41598-018-32347-9  .

17. Michna, R., Gadde, M., Özkan, A., DeWitt, M., Rylander, M. (2017) Vascularized Microfluidic Platforms to Mimic the Tumor Microenvironment, Biotechnology and Bioengineering,  115 (11), pp 2793-2806 , doi:10.1002/bit.26778  .

18. Özkan, A., Erdem, E. Y. (2015) Numerical Analysis of Mixing Performance in Sinusoidal Microchannels Based on Particle Motion in Droplets, Microfluidics and Nanofluidics, 19(5), pp 1101-1108, doi: 10.1007/s10404-015-1628-7.

Patents:

1. Rylander, M. N., Gadde, M., Michna, R., Isaac, K., Özkan, A., Brocklehurst, S., & Ghousifam, N. (2020) Vascularized Microfluidic Platforms, U.S. Patent Application PCT/US2018/038734.

Conference Proceedings/Presentations:

1. Özkan, A., Naziripour, A., Mathiassen, T.B., LoGrande, N., Horvath, V., Breault, D., Goyal, G. and Ingber, D., Microbiome-Modulated Acute Radiation Syndrome in Human Intestine Organ Chips,.AGA Digestive Diseases Week (DDW) 2024, Washington, DC.,DOI: 10.1016/S0016-5085(24)00728-5

2. Özkan, A., Stejskalova, A., Calderon, K., Chou, D.B., Ferri, L.E., Ricciardi, R., Bordeianou, L.G., Goyal, G. and Ingber, D., Maternal Hormone-Associated Inflammatory Bowel Disease Progression in Human Organ Chips.AGA Digestive Diseases Week (DDW) 2024, Washington, DC.,DOI:10.1016/S0016-5085(24)01864-X (Recipient of Distinction of Poster Award).

3. Özkan, A., Merry, G., Chou D. B., Horvath, V., Ferri, L. E., Carlotti, E., McDonald S., A., C., Riccardo, R., Bordeianou, L., Hall S.,Ingber, D. E., Modeling Inflammatory Bowel Disease Progression in Human Organ-Chips, AGA Digestive Diseases Week (DDW) 2023, Chicago, IL.,DOI: 10.1016/S0016-5085(23)01430-0.

4. Özkan, A., Stolley, D. L., Yankeelov, T. E., Rylander, M. N., Vascularized Hepatocellular Carcinoma-on-a-chip for Assessment of Drug Transport and Chemotherapy Efficacy, ASME-SB3C 2020, Vail, CO (Ph.D. Student Paper Competition Finalist and 3rd Place in Cover Art Contest).

5. Stolley, D. L., Gadde, M., Özkan, A., Yankeelov, T. E., Rylander, M. N., Regulation of Hepatocellular Carcinoma Angiogenesis by Tumor Associated Macrophages in An In Vitro Microfluidic Tumor Platform, ASME-SB3C 2020, Vail, CO. 

6. Özkan, A., Yankeelov, T. E., Rylander, M. N., Towards Chemotherapy Treatment Planning with Hepatocellular Carcinoma-on-a-chip (HCCoC), BMES 2019 Annual Meeting, Philadelphia, PA.

7. Özkan, A., Yankeelov, T. E., Rylander, M. N., Hypoxia, Desmoplasia and Metabolic Activity Mediated Chemoresistance of Hepatocellular Carcinoma, BMES 2019 Annual Meeting, Philadelphia, PA.

8. Özkan, A., Hoopes, P. J., Yankeelov, T. E., Rylander, M. N., Healthy and Tumorigenic Liver-on-a-chips for Toxicology and Chemotherapeutic Testing, Graduate and Industry Networking (GAIN), 2019, Austin, TX (Excellence in Research Award recipient).

9. Özkan, A., Hoopes, P. J., Yankeelov, T. E., Rylander, M. N., Healthy and Tumorigenic Liver-on-a-chips for Toxicology and Chemotherapeutic Testing, LIVESTRONG Cancer Institutes, 2018 Basic and Translational Research Retreat, Austin, TX.

10. Lima, E.A.B.F., Ghousifam, N., Özkan, A., Oden, J.T., Shahmoradi, A., Rylander, M.N., Wohlmuth, B. and Yankeelov, T.E., An iterative framework for multi-parameter model calibration of tumor growth, 2018 TACC Symposium for Texas Researchers, Austin, TX.

11. Özkan, A., Ghousifam N., Michna, R., Rylander, M. N., Vascularized Liver and Tumor Microenvironments for Determination of Transport and Delivery of Drugs, 8th World Congress of Biomechanics (WCB 2018) Dublin, Ireland.

12. Nikdoost, A., Özkan, A., Keleştemur, Y., Demir,  H. V., Erdem, E. Y., Silica Nanoparticle Formation by Using Droplet-Based Microreactor, ASME InterPACK 2017, San Francisco, CA, doi:10.1115/IPACK2017-74178

13. Özkan, A., Rylander, M. N., Development of a Microfluidic Device with Dual Channels for Growth Factor Gradient on Breast Cancer Chemotaxis in Three Dimensions, ASME Nanoengineering for Medicine and Biology Conference (NEMB) 2016, Houston, TX .

14. Özkan, A., Keleştemur, Y., Demir, H. V., Erdem, E. Y., Silica Synthesis & Coating of Quantum Dots in Droplet-Based Microrectors, ASME InterPACK-ICNMM 2015, San Francisco, CA (Oral and Poster - receiver of the Outstanding Poster Award). doi:10.1115/ICNMM2015-48765

15. Özkan, A., Nikdoost, A., Keita, H., Tuncel, D., Erdem, E. Y., Synthesis of Conjugated Polymer Nanoparticles in a Microreactor, 11th Nanoscience and Nanotechnologgy Conference (NanoTR-11), Ankara, Turkey.

16. Özkan, A., Aerodynamic Design of Turbine Blades using Full Dynanic Analysis of A Wind Turbine, Conference on Wind Energy and Science and Technology (RUZGEM2013), Ankara, Turkey.

17. Özkan, A., Koloszar, L. K., Deconinck, H., Accuracy Study of High-Order Multidimensional RDS - Application to Steady State Advection, METU Graduate Research Conference, Fall 2012