underlines indicate corresponding authorship, * indicates equal contribution
60. İlkay Çisil Köksaldı, Ece Avcı, Sıla Köse, Gökçe Özkul, Ebru Şahin Kehribar, Urartu Özgür Şafak Şeker, Genetically Engineered Bacterial Biofilm Materials Enhances Portable Whole Cell Sensing, 2024 (in review).
59. Cemile Elif Özçelik, Cemre Zekiye Araz, Özgür Yılmaz, Sevgi Gülyüz, Pınar Özdamar, Ezgi Salmanlı, Aykut Özkul, Urartu Özgür Şafak Şeker, Screening Peptide Drug Candidates to Neutralize Whole Viral Agents: A Case study with Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), ACS Pharmacology and Translational Science, 2024 (accepted)
58. Merve Erden Tüçer, Nazlıcan Tunç, Suat Tüçer, Urartu Özgür Şafak Şeker, Transcriptomic Investigation of Nanoparticle Toxicity on Liver Cells, in review, 2024.
57. Ilkay Cisil Koksaldi, Dongwon Park, Abdurahman Atilla, Hansol Kang, Jongmin Kim, and Urartu Ozgur Safak Seker, RNA-based Sensor Systems for Affordable Diagnostics in the Age of Pandemics, ACS Synthetic Biology, 2024-accepted
56. Gökçe Özkul, Ebru Şahin Kehribar, Urartu Ozgur Şafak Şeker, An Antibiotic Degrading Engineered Living Material Platform to Combat Environmental Antibiotic Resistance, in review, 2023.
55. Furkan Ozden, Sina Barazandeh, Dogus Akboga, Urartu Ozgur Safak Seker, A Ercument Cicek, RNAGEN: A generative adversarial network-based model to generate synthetic RNA sequences to target proteins, in review, 2023.
54. Recep Erdem Ahan, Cemile Elif Özçelik, İrem Cagil, Urartu Ozgur Safak Seker, A Synthetic Protein Secretion System for Living Bacterial Therapeutics, in review, 2023.
53. Gozeel Binte Shahid, Recep Erdem Ahan, Julian Ostaku, Urartu Ozgur Safak Seker, A Bacterial Living Therapeutics with Engineered Protein Secretion Circuits To Eliminate Breast Cancer Cells, in review, 2023
52. Cemile Elif Ozcelik, Ozge Begli, Ahmet Hincer, Recep Erdem Ahan, Oğuzhan Oguz, Salih Kesici, Mehmet Seckin, Ozcubukcu, Talip Serkan Kasirga, Urartu Ozgur Safak Seker, Synergistic Screening of Peptide-Based Biotechnological Drug Candidates for Neurodegenerative Diseases using Yeast Display and Phage Display ACS Chemical Neuroscience, 14, 19, 3609–3621, 2023.
51. Eray Ulaş Bozkurt, İrem Niran Çağıl, Ebru Şahin Kehribar, Musa Efe Işılak, Urartu Özgür Şafak Şeker, A Glycosylation Circuit Enables Improved Catalytic Properties of Recombinant Alkaline Phosphatase, ACS Omega, 8 (39), 36218-36227, 2023
50. Anooshay Khan, Esra Yuca, Cemile Elif Ozcelik, Ozge Begli, Oğuzhan Oguz, Talip Serkan Kasirga, Urartu Ozgur Safak Seker Seker, Highly Potent Peptide Therapeutics To Prevent Protein Aggregation In Huntington’s Disease, ACS Medicinal Chemistry Letter, 14 (12), 1821-1826, 2023
49. Sina Barazandeh, Furkan Ozden, Ahmet Hincer, Urartu Ozgur Safak Seker, Ercument Cicek, Learning to Generate 5’UTR Sequences for Optimized Ribosome Load and Gene Expression, in review, 2023
48. Ahmet Hınçer, Recep Erdem Ahan, Ebru Aras, Urartu Özgür Şafak Şeker, Making the Next Generation of Therapeutics: mRNA Meets Synthetic Biology, ACS Synthetic Biology, 12 (9), 2505-2515, 2023 (accepted)
47. Sıla Köse, Recep Erdem Ahan, İlkay Çisil Köksaldı, M. Asbürçe Olgaç, Çiğdem Kasapkara, Urartu Özgür Şafak Şeker, Multiplexed Cell-Based Diagnostic Devices for Detection of Renal Biomarkers Using Genetic Circuits, Biosensors and Bioelectronics, 2023, 223, 115035.
46. Büşra Merve Kırpat Konak*, Mehmet Emin Bakar*, Recep Erdem Ahan, Emel Uzunoğlu Özyürek, Serap Dökmeci, Urartu Özgür Şafak Şeker, A Living Material Platform for the Biomineralization of Silica, Materials Today Bio, 2022, 17, 100461.
45. Gökçe Özkul, Ebru Şahin Kehribar, Recep Erdem Ahan, İlkay Çisil Köksaldı, Aykut Özkul Bedia Dinç, Sibel Aydoğan , Urartu Özgür Şafak Şeker , A Genetically Engineered Biofilm Material for SARS-CoV-2 Capturing and Isolation, Advanced Materials Interfaces, 202201126, 2022.
44. Merve Yavuz, Mustafa Utkur, Ebru Sahin Kehribar, Ecrin Yağız, Emine Ülkü Sarıtaş, Urartu Özgür Şafak Şeker, Engineered Bacteria with Genetic Circuits Accumulating Nanomagnets as MRI Contrast Agents, Small, 2022, 18 (26), 2022537, 2022.
43. Recep Erdem Ahan, Alireza Hanifehnezhad, Ebru Sahin Kehribar, Cigdem Oguzoglu, Katalin Foldes, Cemile Elif Ozcelik, Nazlican Filazi, Sidika Oztop, Sevgen Celik Onder, Eray Ulas Bozkurt, Koray Ergunay, Aykut Ozkul, Urartu Ozgur Safak Seker, A Highly Potent SARS-CoV-2 Blocking Lectin Protein, ACS Infectious Diseases, 2022, 8, 7, 1253-1264.
42. Doğuş Akboğa, Behide Saltepe, Eray Ulaş Bozkurt, Urartu Ozgur Şafak Şeker, A Recombinase-Based Genetic Circuit for Heavy Metal Monitoring, Biosensors,21(2), 212, 2022.
41. Anooshay Khan, Julian Ostaku, Ebru Aras, Urartu Özgür Şafak Şeker, Combating Infectious Diseases with Synthetic Biology, ACS Synthetic Biology, 2022, 11, 2, 528–537.
40. Ilkay Cisil Koksaldi, Recep Erdem Ahan, Sila Kose, Nedim Haciosmanoglu, Ebru Sahin Kehribar, Murat A. Gungen, Bastug, Aliye; Dinc, Bedia; Bodur, Hurrem; Ozkul, Aykut; Urartu O. S. Seker, SARS-CoV-2 detection with de novo designed synthetic riboregulators, 2021. Analytical Chemistry, 2021, 93, 28, 9719-9727.
39. Ozan Furkan Sezgen, Omer Altan, Ahmet Bilir, Merve Gorkem Durmaz, Nedim Haciosmanoglu, Berk Camli, Zeliha Cansu Canbek Ozdil, Ali Emre Pusane, Senior Member, Arda Deniz Yalcinkaya, Urartu Ozgur Safak Seker, Tuna Tugcu, Sema Dumanli, In-body Sensing in Application to Multiscale Communications, IEEE Communications Magazine,59 (5), 62-67
38. Ebru Sahin Kehribar, M. E. Isilak, Eray Ulas Bozkurt, J. Adamcik, R. Mezzenga, Urartu O. S. Seker, Engineering of Biofilms with a Glycosylation Circuit for Biomaterial Applications, Biomaterials Science ,9, 3650-3661, 2021.
37. Behide Saltepe, Eray Ulas Bozkurt, Murat A. Gungen, Ercument Cicek, Urartu O. S. Seker, Genetic circuits combined with machine learning provides fast responding living sensors, Biosensors and Bioelectronics, 2021, 178, 113028.
36. E. Yuca, Ebru Sahin Kehribar, Urartu O. S. Seker, Interaction of Microbial Functional Amyloids with Solid Surfaces, Colloids and Surfaces B : Biointerfaces, 2021, 199, 111547.
35. A. Hanifehnezhada, Ebru Sahin Kehribar, S. Oztop, A. Sheraz, S. Kasirga, K. Ergunay, S. Onder, E. Yilmaz, Urartu O. S. Seker, A. Ozkul, Characterization of local SARS-CoV-2 isolates and pathogenicity in IFNAR−/- mice, Heliyon (Cell Press), 2020, e05116
34. O. Akbulut, D. Lengerli, O. Saatci, Elif Duman, Urartu O. S. Seker, A. Isik, A. Akyol, B. Caliskan, E. Banoglu, O. Sahin, A Highly Potent TACC3 Inhibitor as a Novel Anticancer Drug Candidate, Molecular Cancer Therapeutics, 2020, 19(6), pp 1243-125
33. J. Kwiczak-Yiǧitbaşı, M. Demir, R. E. Ahan, S. Canlı, Urartu O. S. Şeker, and B. Baytekin, Ultrasonication for Environmentally Friendly Preparation of Antimicrobial and Catalytically Active Nanocomposites of Cellulosic Textiles, ACS Sustainable Chemical Engineering, 2020, 8 (51), pp. 18879–18888.
32. J. Kwiczak-Yiğitbaşı, Ö. Laçin, M. Demir, Recep Erdem Ahan, Urartu O. S. Seker, B. Baytekin, A sustainable preparation of catalytically active and antibacterial cellulose metal nanocomposites via ball milling of cellulose, Green Chemistry, 2020, 22 (2), pp 455-464
31. Behide Saltepe, Eray Ulaş Bozkurt, Nedim Haciosmanoglu, Urartu O. S. Seker, Genetic Circuits to Detect Nanomaterial Triggered Toxicity through Engineered Heat Shock Response Mechanism, ACS Synthetic Biology, 2019, 8, 10, 2404-2417 (highlighted on the cover of November 2019 issue)
30. Ebuzer Kalyoncu, Recep Erdem Ahan, Cemile Elif Özçelik, Urartu O. S. Seker, Genetic Logic Gates Enable Patterning of Bacterial Nanofibers, Advanced Materials, 2019, 31 (39), Article number 1902888.
29. Tolga Tarkan Olmez, Ebru Sahin Kehriba, Musa Efe Isılak, Urartu O. S. Seker, Self Actuated Nanomaterial Synthesizing Genetic Circuits, , ACS Synthetic Biology, 2019, 8, 9, pp. 2152-2162
28. Elif Duman, Ebru Sahin, Recep Erdem Ahan, Esra Yuca, Urartu O. S. Seker, Biomineralization of Calcium Phosphate Crystals Controlled by Protein-Protein Interactions, ACS Biomaterials Science & Engineering, 5, 9, pp 4750-4763
27. Recep Erdem Ahan, Busra Merve Kırpat, Behide Saltepe, Urartu O. S. Seker, A Self-Actuated Cellular Protein Delivery Machine, ACS Synthetic Biology, 2019, 8, 4, 686-696 (highlighted on the cover of April 2019 issue)
26.Recep Erdem Ahan*, Behide Saltepe*, Onur Apaydin*, Urartu O. S. Seker, Cellular Biocatalysts Using Engineered Genetic Circuits For Prolonged and Durable Enzymatic Activity, ChemBioChem, 2019, 20 (14), 1799-1809 (highlighted on the cover of July 2019 issue)
25. Tugce Onur, Esra Yuca, Tolga T. Olmez, Urartu. O. S. Seker, Self-Assembled Recombinant Biofilm Proteins as Functional Materials, Journal of Colloid and Interface Science, 2018, 520, pp 145-154
24. Tolga T. Olmez, Esra Yuca, Erol Eyupoglu, Hazal B. Catalak, Ozgur Sahin, Urartu O. S. Seker, Autonomous Synthesis of Fluorescent Silica Bio-Dots Using Engineered Fusion Proteins, ACS Omega, 2018, 3 (1), pp 585–594.
23. Behide Saltepe, Ebru Sahin Kehribar, Side Selin Su Yirmibesoglu, Urartu O. S. Seker, Cellular Biosensors with Engineered Genetic Circuits, ACS Sensors, 2017, 3 (1), pp 13–26
22. Ebuzer Kalyoncu, Recep Erdem Ahan, Tolga Tarkan Olmez, Urartu O. S. Seker, Genetically Encoded Conductive Protein Nanofibers Secreted by Engineered Cells, RSC Advances, 2017, 7, pp 32543-32551 .
21. Tarek Abdelwahab, Ebuzer Kalyoncu, Tugce Onur, Mehmet Z. Baykara, Urartu O. S. Seker, Genetically-Tunable Mechanical Properties of Bacterial Functional Amyloid Nanofibers, Langmuir, 2017 , 33 (17), pp 4337-4345.
20. Urartu O. S. Seker, Allen Chen, Timothy K. Lu, Synthetic Biogenesis of Bacterial Amyloid Nanomaterials with Tunable Inorganic-Organic Interfaces and Electrical Conductivity, ACS Synthetic Biology, 2017, 6 (2), pp 266–275.
19. Gözde Kabay, Gizem Kaleli, Zahida Sultanova, Tolga Tarkan Ölmez, Urartu O. S. Seker, Mehmet Mutlu, Biocatalytic protein membranes, Reactive and Functional Polymers, 2016, 6, 26.
Before Starting Synthetic Biosystems Laboratory
18. Allen Y. Chen, D. Zhong, N. Billing, Urartu O. S. Seker, Michelle Y. Lu, Robert J. Citorik, B. Zakeri, Timothy K. Lu, Synthesizing and Patterning Tunable Multiscale Amyloid Materials with Synthetic Biofilms, Nature Materials, 2014, 13, 515. NEWS 1, NEWS2
17. Urartu O. S. Seker, Brandon Wilson, John L. Kulp , John S. Evan, Candan Tamerler, Mehmet Sarikaya, Thermodynamics of Engineered Gold Binding Peptides- Establishing Structure-Activity Relationship, Biomacromolecules, 2014, 15 (7), 2369.
16. Urartu O. S. Seker*, Evren Mutlugun*, Pedro Ludwig Hernandez- Martinez, Vijay K. Sharma, Alexander Eychmüller, Hilmi Volkan Demir*, Bio-Nanohybrids of Photoproteins and Quantum Dots Facilitating Energy Transfer for Biosensing, Nanoscale, March 2013, 5, 7034-7040 (*corresponding author ) Impact Factor: 6
15. Urartu O. S. Seker, Vijay Kumar Sharma, Shahab Akhavan, H. V. Demir, Genetically Engineered Peptides for Nano-hybrid Assemblies, Langmuir, 2014, 30 (8), 2137-2143. (*corresponding author). Impact Factor: 4.2
14. Urartu O. S. Seker, Tuncay Ozel, Hilmi V Demir, Peptide-Mediated Constructs of Quantum Dot Nanocomposites for Enzymatic Control of Nonradiative Energy Transfer, Nano Letters, 2011, 11 (4), 1530-1539. Impact Factor: 13
13. Urartu O. S. Seker, G. Zengin, C. Tamerler, M. Sarikaya, H. V. Demir, Assembly Kinetics of Nanocrystals via Peptide Hybridization, Langmuir, 2011, 27 (8), 4867-4872. (*corresponding author) Impact Factor: 4
12. Hilmi V Demir, Urartu O. S. Seker, G. Zengin, E. Mutlugun, E. Sari, C. Tamerler, M. Sarikaya, Spatially Selective Assembly of Quantum Dot Light Emitters in an LED using Engineered Peptides, ACS Nano, 2011, 5 (4), 2735-2741. Impact Factor: 12
11. Esra Yuca, Ayten Karatas, Urartu O. S. Seker, Mustafa Gungormus, Gizem Dinler, Mehmet Sarikaya, Candan Tamerler, In vitro labeling of hydroxyapatite minerals by an engineered protein, Biotechnology and Bioengineering, 108 (5), 1021-1030, 2011. Impact Factor: 4
10. Urartu O. S. Seker, H. Volkan Demir, Material Binding Peptides for Nanotechnology, Molecules, (Invited review paper for Special issue of “Phage Display of Combinatorial Libraries” Ed. Brendan P. Orner) 16 (1), 1426-1451, 2011. Impact Factor: 3
9. Urartu O. S. Şeker, B.Wilson, D. Sahin, C. Tamerler, M. Sarikaya. Quantitative Affinity of Genetically Engineered Repeating Polypeptides to Inorganic Solids, Biomacromolecules, 10 (2), 250-257, (2009). Impact Factor: 5
8. M. Hnilova, E. E. Oren, Urartu O. S. Seker, J. Evans, C. Tamerler, M. Sarikaya, Effect of Conformation on Adsorption Behavior of Gold Binding Peptides, Langmuir, 24 (21), 12440-12445, (2008). Impact Factor: 4
7. Urartu O. S. Şeker, B. Wilson, S. Dincer, I. W. Kim, E. E. Oren, J. S. Evans, C. Tamerler, M. Sarikaya. Adsorption Behavior of Genetically Engineered Platinum Binding Peptides, Langmuir, 23 (15), 7895-7900, (2007).
6. E. E. Oren, C. Tamerler, D. Sahin, M. Hnillova, Urartu O. S. Seker, M. Sarikaya, R. Samudrala. A Novel Informatics-Based Approach to Design Inorganic Binding Peptides, Bioinformatics, 24 (21), 2816-2822, (2007). Impact Factor: 6
5. Z. P. Cakar, Urartu O. S. Seker, C. Tamerler, M. Sonderegger, Uwe Sauer, Evolutionary Engineering of Multiple Stress Resistant Saccharomyces cerevisiae, FEMS Yeast Research, (6-7), 569-578 (2005). Impact Factor: 3
4. B. Erdag, B. K. Balcioglu, A. O. Bahadir, M. Serhatli, O. Kacar, A. Bahar, Urartu O. S. Seker et al., Identification of Novel Neutralizing Single-Chain Antibodies Against Vegfr-2, Biotechnology and Applied Biochemistry, 58 (16), (2011). Impact Factor: 2
3. I. H. Boyaci, Urartu O. S. Seker, D. Bas, A. Topcu, C. Tamerler, Statistical Modeling of Product Inhibition Effect on β-Galactosidase Enzyme During Lactose Hydrolysis, Food Biotechnology, 20 (1), 79-91, (2006). Impact Factor: 2
2. Urartu O. S. Seker, T. Catal, Y. Taptık, C. Tamerler, H. Bermek, Enhanced production of manganese peroxidase by the white rot fungus Bjerkandera adusta using media engineering. Biotechnology and Biotechnological Equipment, 22 (3), 844-848 (2008). Impact Factor: 1.5
1. I. H. Boyaci,Urartu O. S. Seker and M. Mutlu, Determination of β-glucan content of cereals with amperometric glucose electrode, European Food Research and Technology (15), 538-541 (2002). Impact Factor: 2