Publications
2020-Present
L. Xiang, K. Mooney, M. Dai, M. R. Stewart, S. Holland, M. I. Henderson, S. Drennan, R. F. Barajas Jr., J. M. Fischer, A. Yildirim, A Molecular Shielding Strategy to Develop Low Protein Binding, Renal Clearable Pan-Cancer Near-Infrared Probes, Advanced Functional Materials, 2026, (In Press).
K. Bonic, M. R. Stewart, L. Xiang, K. Mooney, R. Armstrong, S. Esener, J. M. Fischer, A. Yildirim, Lipid Tail Length Determines Nano-Bio Interactions of Peptide Amphiphile Nanostructures, Small, 22, 2026, e12073.
L. Xiang, M. R. Stewart, K. Mooney, M. Dai, S. Drennan, S. Holland, A. Quentel, S. Sabuncu, M.I. Henderson, B. R. Kingston, I. Dengos, K. Bonic, F. Goncalves, X. Yi, S. Ranganathan, B. P. Branchaud, L. L. Muldoon, R. F. Barajas Jr, J. M. Fischer, A. Yildirim, Peptide Amphiphiles Hitchhike on Endogenous Biomolecules for Enhanced Cancer Imaging and Therapy, Advanced Materials, 2026, 38, e09359.
L. Xiang, M.I. Henderson, S. Drennan, S. Sabuncu, J. M. Fischer, A. Yildirim, Peptide Amphiphile-Nanoparticle Assemblies for Mechano-Chemo Combination Therapy. Nano Letters, 2025, 25, 7875.
M. Stewart, A. Quentel, E. Manalo, J. Montoya Mira, S. Ranganathan, B. P. Branchaud, J. M. Fischer, E. Tu, F. Civitci, Y.-J. Chiu, A. Yildirim, Profiling Protease Cleavage Patterns in Plasma for Pancreatic Cancer Detection, Scientific Reports, 2024, 14, 31809.
S. Sabuncu, R. Javier Ramirez, J. M. Fischer, F. Civitci, A. Yildirim, Ultrafast Background-Free Ultrasound Imaging using Blinking Nanoparticles, Nano Letters, 2023, 23, 659.
S. Sabuncu, J. L. Montoya Mira, A. Quentel, M. M. Gomes, F. Civitci, J. M. Fischer, A. Yildirim, Protein-Coated Biodegradable Gas-Stabilizing Nanoparticles for Cancer Therapy and Diagnosis using Focused Ultrasound, Advanced Materials Interfaces, 2023, 10, 2201543.
E. Olson, J. Plaut, S. Barnhill, S. Sabuncu, C. Dambacher, S. Speese, S. Ranganathan, B. Branchaud, A. Yildirim, Enzyme-Instructed Formation of β-Sheet-Rich Nanoplatelets for Label-Free Protease Sensing, ACS Applied Nano Materials, 2021, 4, 7800.
S. Sabuncu, A. Yildirim, Gas-stabilizing nanoparticles for ultrasound imaging and therapy of cancer, Nano Convergence, 2021, 8, 39.
J. L. Montoya Mira, L. Wu, S. Sabuncu, A. Sapre, F. Civitci, S. Ibsen, S. Esener, A. Yildirim, Gas-Stabilizing sub-100 nm Mesoporous Silica Nanoparticles for Ultrasound Theranostics, ACS Omega, 2020, 5, 24762.
Prior to OHSU
A. Yildirim, N. T. Blum, A. P. Goodwin “Colloids, nanoparticles, and materials for imaging, delivery, ablation, and theranostics by focused ultrasound (FUS)” Theranostics, 2019, 9, 2572.
N. T. Blum, A. Yildirim, C. Gyorkos, D. Shi, A. Cai, R. Chattaraj, A. P. Goodwin “Temperature-Responsive Hydrophobic Silica Nanoparticle Ultrasound Contrast Agents Directed by Phospholipid Phase Behavior” ACS Applied Materials and Interfaces, 2019, 11, 15233.
A. Yildirim, D. Shi, S. Roy, R. Chattaraj, N. T. Blum, A. P. Goodwin “Nanoparticle-enabled acoustic cavitation for selective mechanical high intensity focused ultrasound ablation” ACS Applied Materials and Interfaces, 2018, 10, 36786.
A. Yildirim, R. Chattaraj, N. T. Blum, D. Shi, K. Kumar, A. P. Goodwin “Phospholipid Capped Mesoporous Nanoparticles for Targeted High Intensity Focused Ultrasound Ablation” Advanced Healthcare Materials, 2017, 6, 1700514.
N. T. Blum, A. Yildirim, R. Chattaraj, A. P. Goodwin “Nanoparticles Formed by Acoustic Destruction of Microbubbles and Their Utilization for Imaging and Effects on Therapy by High Intensity Focused Ultrasound” Theranostics, 2017, 7, 694.
M. Yunusa, F. E. Ozturk, A. Yildirim, U Tuvshindorj, M Kanik, M Bayindir “Bio-inspired hierarchically structured polymer fibers for anisotropic non-wetting surfaces” RSC Advances, 2017, 7, 15553.
A. Yildirim, R. Chattaraj, N. T. Blum, G. M. Goldscheitter, A. P. Goodwin “Understanding Acoustic Cavitation Initiation by Porous Nanoparticles: Toward Nanoscale Agents for Ultrasound Imaging and Therapy” Chemistry of Materials, 2016, 28, 5962.
A. Yildirim, R. Chattaraj, N. T. Blum, G. M. Goldscheitter, A. P. Goodwin “Hydrophobic Mesoporous Silica Nanoparticles as Fluorocarbon-Free Nanoscale Ultrasound Contrast Agents” Advanced Healthcare Materials, 2016, 5, 1290.
P. Beyazkilic, U. Tuvshindorj, A. Yildirim, C. Elbuken, M. Bayindir “Robust superhydrophilic patterning of superhydrophobic ormosil surfaces for high-throughput on-chip screening applications” RSC Advances, 2016, 6, 32060.
A. Yildirim, M. Turkaydin, B. Garipcan, M. Bayindir “Cytotoxicity of multifunctional surfactant containing capped mesoporous silica nanoparticles” RSC Advances, 2016, 6, 32060. (*Co-corresponding authors)
R. Chattaraj, G. M. Goldscheitter, A. Yildirim, A. P. Goodwin “Phase behavior of mixed lipid monolayers on perfluorocarbon nanoemulsions and its effect on acoustic contrast” RSC Advances, 2016, 6, 111318.
L. He, J. Dragavon, S. Cho, C. Mao, A. Yildirim, K. Ma, R. Chattaraj, Andrew P Goodwin, Wounjhang Park, Jennifer N Cha “Self-Assembled Gold Nanostar-NaYF4: Yb/Er Clusters for Multimodal Imaging, Photothermal and Photodynamic Therapy” Journal of Materials Chemistry B, 2016, 4, 4455.
K. Kumar, E. J. Castaño, A. R. Weidner, A. Yildirim, A. P. Goodwin “Depolymerizable Poly (O-vinyl carbamate-alt-sulfones) as Customizable Macromolecular Scaffolds for Mucosal Drug Delivery” ACS Macro Letters, 2016, 5, 636.
A. Yildirim, M. Bayindir “A porosity difference based selective dissolution strategy to prepare shape-tailored hollow mesoporous silica nanoparticles” Journal of Materials Chemistry A, 2015, 3, 3839. (*Co-corresponding authors)
T. G. Ulusoy, B. Daglar, A. Yildirim, A. Ghobadi, M. Bayindir, A. K. Okyay “Enhanced performance of dye-sensitized solar cells by omnidirectional antireflective coatings” Journal of Photonics for Energy, 2015, 5, 053090.
M. Sardan†, A. Yildirim†, D. Mumcuoglu, A. B. Tekinay*, M. O. Guler* “Noncovalent functionalization of mesoporous silica nanoparticles with amphiphilic peptides” Journal of Materials Chemistry B, 2014, 2, 2168. (†Equal contribution)
A. Yildirim, M. Yunusa, F. E. Ozturk, M. Kanik, M. Bayindir “Surface textured polymer fibers for microfluidics” Advanced Functional Materials, 2014, 24, 4569.
U. Tuvshindorj, A. Yildirim, F. E. Ozturk, Mehmet Bayindir “Robust Cassie state of wetting in transparent superhydrophobic coatings” ACS Applied Materials and Interfaces, 2014, 6, 9680.
F. E. Ozturk, A. Yildirim, M. Kanik, M. Bayindir “Photonic bandgap narrowing in conical hollow core Bragg fibers” Applied Physics Letters, 2014, 105, 071102.
A. Yildirim and M. Bayindir “Turn-on fluorescent dopamine sensing based on in situ formation of visible light emitting polydopamine nanoparticles” Analytical Chemistry, 2014, 86, 5508.
P. Beyazkilic, A. Yildirim, M. Bayindir “Formation of pyrene excimers in mesoporous ormosil thin films for visual detection of nitro-explosives” ACS Applied Materials and Interfaces, 2014, 6, 4997.
P. Beyazkilic, A. Yildirim, M. Bayindir “Nanoconfinement of pyrene in mesostructured silica nanoparticles for trace detection of TNT in aqueous phase” Nanoscale, 2014, 6, 15203.
A. Yildirim, G. B. Demirel, R. Erdem, B. Senturk, T. Tekinay, M. Bayindir “Pluronic polymer capped biocompatible mesoporous silica nanocarriers” Chemical Communications, 2013, 49, 9782.
A. Yildirim, E. Ozgur, M. Bayindir “Impact of mesoporous silica nanoparticle surface functionality on hemolytic activity, thrombogenicity and non-specific protein adsorption” Journal of Materials Chemistry B, 2013, 1, 1909.
A. Yildirim†, F. E. Ozturk†, M. Bayindir, “Smelling in chemically complex environments: An optofluidic Bragg fiber array for differentiation of methanol adulterated beverages” Analytical Chemistry, 2013, 85, 6384. (†Equal contribution)
A. Yildirim, T. Khudiyev, B. Daglar, H. Budunoglu, A. K. Okyay, M. Bayindir “Superhydrophobic and omnidirectional antireflective surfaces from nanostructured ormosil colloids” ACS Applied Materials and Interfaces, 2013, 5, 853.
H. Budunoglu, A. Yildirim, M. Bayindir “Flexible and mechanically stable anti-reflective coatings from nanoporous organically modified silica colloids” Journal of Materials Chemistry, 2012, 22, 9671.
M. Yaman, A. Yildirim, M. Kanik, T. C. Cinkara, M. Bayindir “High Selectivity Boolean Olfaction Hollow-core Wavelength-scalable Bragg Fibers” Analytical Chemistry, 2012, 84, 83.
A. Yildirim, H. Budunoglu, B. Daglar, H. Deniz, M. Bayindir “One-pot preparation of fluorinated mesoporous silica nanoparticles for liquid marble formation and superhydrophobic surfaces” ACS Applied Materials and Interfaces, 2011, 3, 1804.
A. Yildirim, H. Acar, T. S. Erkal, M. Bayindir, M. O. Guler, “Template-directed synthesis of silica nanotubes for explosive detection” ACS Applied Materials and Interfaces, 2011, 3, 4159.
A. Yildirim, H. Budunoglu, M. Yaman, M. O. Guler, M. Bayindir “Template free preparation of nanoporous organically modified silica thin films on flexible substrates” Journal of Materials Chemistry, 2011, 21, 14830.
A. Yildirim†, M. Vural†, M. Yaman†, M. Bayindir “Bioinspired optoelectronic nose with nanostructured wavelength-scalable hollow-core infrared fibers” Advanced Materials, 2011, 23, 1263. (†Equal contribution)
H. Budunoglu, A. Yildirim, M. O. Guler, M. Bayindir “Highly transparent, flexible, and thermally stable superhydrophobic ormosil aerogel thin films” ACS Applied Materials and Interfaces, 2011, 3, 539.
A. Yildirim, H. Budunoglu, H. Deniz, M. O. Guler, M. Bayindir “Template-free synthesis of organically modified silica mesoporous thin films for TNT sensing” ACS Applied Materials and Interfaces, 2010, 2, 2892.