Assoc. Prof. ÖMER AYDIN

Publication Network

Articles 45

1. Chrysin-Loaded Micelles Regulate Cell Cycle and Induce Intrinsic and Extrinsic Apoptosis in Ovarian Cancer Cells

Cakir S., Yildiz U., Yildirim T., AYDIN Ö.

Nanomaterials , vol.15, no.17, 2025 (SCI-Expanded, Scopus)

2. Breakthrough Solution for Antimicrobial Resistance Detection: Surface-Enhanced Raman Spectroscopy-based on Artificial Intelligence

Al-Shaebi Z., Akdeniz M., Ahmed A. O., Altunbek M., AYDIN Ö.

ADVANCED MATERIALS INTERFACES , vol.12, no.14, 2025 (SCI-Expanded, Scopus) Sustainable Development

3. Multifunctional Cyclic Olefin Copolymer-Titanium Dioxide-Based Nanocomposites for Enhanced Antibacterial and Biocompatible Properties

Riaz Z., Ali M., Abbasi A. D., Khan K. A., AYDIN Ö.

ACS Omega , vol.10, no.15, pp.15052-15064, 2025 (SCI-Expanded, Scopus)

4. Evaluation of microhardness, monomer conversion, and antibacterial properties of an experimental pulp‑capping material containing collagen–hydroxyapatite nanocomposite and/or chlorhexidine

Balkaya H., Demirbuğa S., Duman F., Ceylan A., Aydın Ö.

GERODONTOLOGY , vol.1, no.1, pp.1-2, 2025 (SCI-Expanded, Scopus)

5. Enhanced In Vitro and In Vivo Autophagy Suppression via LC3 siRNA-Loaded “Smart” Nanoparticles and Doxorubicin Combination Therapy in Triple Negative Breast Cancer

Walweel N., ÇINAR V., Mersin O., MACİT S., Yildiz U., Demirel E., et al.

ACS Applied Bio Materials , 2025 (ESCI, Scopus)

6. Development of silver-based hybrid nanoparticles loaded with eEF2 K-siRNA and quercetin against triple-negative breast cancer

Eksi O. B., Guler A., Akdeniz M., Atalay P., HAMURCU Z., AYDIN Ö.

Drug Delivery and Translational Research , 2025 (SCI-Expanded, Scopus)

7. SERS and Machine Learning-Enabled Liquid Biopsy: A Promising Tool for Early Detection and Recurrence Prediction in Acute Leukemia

Öktem F., Akdeniz M., Al-Shaebi Z., Akyol G., Keklik M., Aydın Ö.

ACS Omega , 2025 (SCI-Expanded, Scopus)

8. Better together: biomimetic nanomedicines for high performance tumor therapy

Mohammad I. S., Kursunluoglu G., Patel A. K., Ishaq H. M., Tunc C. U., Kanarya D., et al.

Beilstein Journal of Nanotechnology , vol.16, pp.1246-1276, 2025 (SCI-Expanded, Scopus)

9. Enhancing Therapeutic Efficacy in Cancer Treatment: Integrating Nanomedicine with Autophagy Inhibition Strategies

Walweel N., AYDIN Ö.

ACS OMEGA , vol.9, no.26, pp.27832-27852, 2024 (SCI-Expanded, Scopus) Sustainable Development

10. LC3 siRNA-Mediated Impressed Autophagy in GBM Cells Enhances the Efficacy of Temozolomide: Inhibits Proliferation, Clone Formation and Migration of U87-MG Cells

GÖKÇEK Ö. C., ULUTABANCA H., Guler A., ÇINAR V., Nurdinov N., Kokcu N. D., et al.

MEDICINA BALEAR , vol.39, no.3, 2024 (ESCI)

11. Staphylococcus Aureus-Related antibiotic resistance detection using synergy of Surface-Enhanced Raman spectroscopy and deep learning

Al-Shaebi Z., UYSAL ÇİLOĞLU F., Nasser M., Kahraman M., AYDIN Ö.

Biomedical Signal Processing and Control , vol.91, 2024 (SCI-Expanded, Scopus)

12. Investigation of Gold Nanoparticle Naproxen-Derived Conjugations in Ovarian Cancer

Tunc C. U., Kursunluoglu G., Akdeniz M., Kutlu A. U., Han M. İ., Aycan M. B., et al.

ACS MATERIALS AU , vol.3, no.5, pp.483-491, 2023 (ESCI)

13. Characterization and discrimination of spike protein in SARS‐CoV‐2 virus‐like particles via surface‐enhanced raman spectroscopy

Akdeniz M., Al-Shaebi Z., Altunbek M., Bayraktar C., Kayabolen A., Bagci-Onder T., et al.

BIOTECHNOLOGY JOURNAL , vol.2300191, pp.1-10, 2023 (SCI-Expanded, Scopus)

14. Design, synthesis, molecular docking and biological evaluation of 1,2,4-triazole derivatives possessing a hydrazone moiety as anti-breast cancer agents

Tapera M., Kekeçmuhammed H., Tunc C. U., Kutlu A. U., ÇELİK İ., Zorlu Y., et al.

New Journal of Chemistry , vol.47, no.24, pp.11602-11614, 2023 (SCI-Expanded, Scopus) Sustainable Development

15. Overcome of Cisplatin Drug Resistance in Ovarian Cancer by Combination of Low-Intensity Ultrasound and Cisplatin.

Kip B., Aydin Ö.

Current drug delivery , vol.20, pp.1380-1390, 2023 (SCI-Expanded, Scopus) Sustainable Development

16. Simple Staining of Cells on a Chip.

Kosker F. B., Aydin Ö., Icoz K.

Biosensors , vol.12, no.11, 2022 (SCI-Expanded, Scopus)

17. DeepCAN: A Modular Deep Learning System for Automated Cell Counting and Viability Analysis.

Eren F., Aslan M., Kanarya D., Uysalli Y., Aydin M., Kiraz B., et al.

IEEE journal of biomedical and health informatics , vol.26, no.11, pp.5575-5583, 2022 (SCI-Expanded, Scopus)

18. Highly Accurate Identification of Bacteria's Antibiotic Resistance Based on Raman Spectroscopy and U-Net Deep Learning Algorithms

Al-Shaebi Z., UYSAL ÇİLOĞLU F., Nasser M., AYDIN Ö.

ACS OMEGA , vol.7, no.33, pp.29443-29451, 2022 (SCI-Expanded, Scopus)

19. SERS-based sensor with a machine learning based effective feature extraction technique for fast detection of colistin-resistant Klebsiella pneumoniae

Ciloglu F., Hora M., GÜNDOĞDU A., Kahraman M., TOKMAKÇI M., AYDIN Ö.

Analytica Chimica Acta , vol.1221, 2022 (SCI-Expanded, Scopus) Sustainable Development

20. Co-delivery of Bcl-2 siRNA and doxorubicin through gold nanoparticle-based delivery system for a combined cancer therapy approach

Tunç C. Ü., AYDIN Ö.

Journal of Drug Delivery Science and Technology , vol.74, 2022 (SCI-Expanded, Scopus) Sustainable Development

21. Investigation of mammalian cells expressing SARS-CoV-2 proteins by surface-enhanced Raman scattering and multivariate analysis

Akdeniz M., UYSAL ÇİLOĞLU F., Tunc C. U., YILMAZ Ü., Kanarya D., ATALAY DÜNDAR P., et al.

ANALYST , vol.147, no.6, pp.1213-1221, 2022 (SCI-Expanded, Scopus) Sustainable Development

22. Selective Binding of pVTK Peptide- and Bisphosphonate-Functionalized Micelles to Prostate Cancer Cells, Osteoblasts, and Osteoclasts

AYDIN Ö., Tiruchinapally G., Youssef I., Ramaraju H., YÜKSEL DURMAZ Y., Kozloff K. M., et al.

Precision Nanomedicine , vol.5, no.1, pp.851-869, 2022 (Scopus) Sustainable Development

23. Design, synthesis, and in vitro and in vivo anticancer activity studies of new (S)-Naproxen thiosemicarbazide/1,2,4-triazole derivatives

Han M. İ., Tunc C. U., Atalay P., Erdogan O., Ünal G., Bozkurt M., et al.

NEW JOURNAL OF CHEMISTRY , vol.46, no.13, pp.6046-6059, 2022 (SCI-Expanded, Scopus) Sustainable Development

24. Discrimination of waterborne pathogens, Cryptosporidium parvum oocysts and bacteria using surface-enhanced Raman spectroscopy coupled with principal component analysis and hierarchical clustering

Arslan A. H., Ciloglu F., Yilmaz U., ŞİMŞEK E., AYDIN Ö.

Spectrochimica Acta - Part A: Molecular and Biomolecular Spectroscopy , vol.267, 2022 (SCI-Expanded, Scopus) Sustainable Development

25. Review: mRNA delivery systems in vaccinations and COVID-19

Walweel N., Kutlu A. U., YILMAZ Ü., Al-Shaebi Z., Charmi J., AYDIN Ö.

Journal of Research in Pharmacy , vol.26, no.5, pp.1084-1101, 2022 (Scopus, TRDizin) Sustainable Development

26. Triple-combination therapy assisted with ultrasound-active gold nanoparticles and ultrasound therapy against 3D cisplatin-resistant ovarian cancer model.

Kip B., Tunc C. U., Aydin Ö.

Ultrasonics sonochemistry , vol.82, pp.105903, 2021 (SCI-Expanded, Scopus) Sustainable Development

27. Yüzeyde Zenginleştirilmiş Raman Saçılması (YZRS) ile Ovaryum Kanser İlaç Direncinin İncelenmesi

AYDIN Ö.

Erciyes Üniversitesi Fen Bilimleri Enstitüsü Fen Bilimleri Dergisi , vol.37, no.3, pp.404-411, 2021 (TRDizin) Sustainable Development

28. Drug-resistant Staphylococcus aureus bacteria detection by combining surface-enhanced Raman spectroscopy (SERS) and deep learning techniques

Ciloglu F., Caliskan A., Saridag A. M., Kilic I. H., TOKMAKÇI M., Kahraman M., et al.

Scientific Reports , vol.11, no.1, 2021 (SCI-Expanded, Scopus)

29. Design and synthesis of novel (S)-Naproxen hydrazide-hydrazones as potent VEGFR-2 inhibitors and their evaluation in vitro/in vivo breast cancer models

Han M. İ., Atalay P., Tunç C. Ü., Ünal G., Dayan S., Aydın Ö., et al.

BIOORGANIC & MEDICINAL CHEMISTRY , vol.37, 2021 (SCI-Expanded, Scopus) Sustainable Development

30. Pulsed-focused ultrasound slows B16 melanoma and 4T1 breast tumor growth through differential tumor microenvironmental changes

Cohen G., Chandran P., Lorsung R. M., Aydin Ö., Tomlinson L. E., Rosenblatt R. B., et al.

Cancers , vol.13, no.7, 2021 (SCI-Expanded, Scopus)

31. Engineering of pH-sensitive, cross-linked micelles for drug delivery

AYDIN Ö.

JOURNAL OF RESEARCH IN PHARMACY , vol.25, no.4, pp.359-370, 2021 (ESCI, Scopus, TRDizin) Sustainable Development

32. Identification of methicillin-resistant: Staphylococcus aureus bacteria using surface-enhanced Raman spectroscopy and machine learning techniques

Uysal C., Saridag A., Kilic I., Tokmakci M., Kahraman M., Aydin Ö.

Analyst , vol.145, no.23, pp.7559-7570, 2020 (SCI-Expanded, Scopus)

33. Identification of methicillin-resistant Staphylococcus aureus bacteria using surface-enhanced Raman spectroscopy and machine learning techniques

Uysal Çiloğlu F., Sarıdağ A. M., Kılıç İ. H., Tokmakçı M., Kahraman M., Aydın Ö.

Analyst , no.145, pp.7559-7570, 2020 (SCI-Expanded, Scopus)

34. Usage of natural chitosan membrane obtained from insect corneal lenses as a drug carrier and its potential for point of care tests

Ikl S., Ramanauskaite A., Bilican B. K., Mulercikas P., Cam D., ÖNSES M. S., et al.

MATERIALS SCIENCE & ENGINEERING C-MATERIALS FOR BIOLOGICAL APPLICATIONS , vol.112, 2020 (SCI-Expanded, Scopus)

35. The Proteomic Effects of Pulsed Focused Ultrasound on Tumor Microenvironments of Murine Melanoma and Breast Cancer Models.

Aydin Ö., Chandran P., Lorsung R., Cohen G., Burks S., Frank J.

Ultrasound in medicine & biology , vol.45, pp.3232-3245, 2019 (SCI-Expanded, Scopus) Sustainable Development

36. Noninvasive Ablation of Prostate Cancer Spheroids Using Acoustically-Activated Nanodroplets

Aydin O., VLAİSAVLJEVİCH E., Durmaz Y. Y., XU Z., ElSayed M. E. H.

MOLECULAR PHARMACEUTICS , vol.13, no.12, pp.4054-4065, 2016 (SCI-Expanded, Scopus) Sustainable Development

37. Formulation of Acid-Sensitive Micelles for Delivery of Cabazitaxel into Prostate Cancer Cells

Aydin O., YOUSSEF I., Durmaz Y. Y., TİRUCHİNAPALLY G., ElSayed M. E. H.

MOLECULAR PHARMACEUTICS , vol.13, no.4, pp.1413-1429, 2016 (SCI-Expanded, Scopus) Sustainable Development

38. EFFECTS OF DROPLET COMPOSITION ON NANODROPLET-MEDIATED HISTOTRIPSY

VLAİSAVLJEVİCH E., Aydin O., Durmaz Y. Y., LİN K., FOWLKES B., XU Z., et al.

ULTRASOUND IN MEDICINE AND BIOLOGY , vol.42, no.4, pp.931-946, 2016 (SCI-Expanded, Scopus)

39. The role of positive and negative pressure on cavitation nucleation in nanodroplet-mediated histotripsy

Vlaisavljevich E., Aydin O., Lin K., Durmaz Y. Y., Fowlkes B., ElSayed M., et al.

PHYSICS IN MEDICINE AND BIOLOGY , vol.61, no.2, pp.663-682, 2016 (SCI-Expanded, Scopus)

40. EFFECTS OF ULTRASOUND FREQUENCY ON NANODROPLET-MEDIATED HISTOTRIPSY

VLAİSAVLJEVİCH E., Aydin O., Durmaz Y. Y., Lin K., Fowlkes B., Elsayed M., et al.

ULTRASOUND IN MEDICINE AND BIOLOGY , vol.41, no.8, pp.2135-2147, 2015 (SCI-Expanded, Scopus)

41. Oligonucleotide-Mediated Au-Ag Core-Shell Nanoparticles

Kahraman M., Aydin O., Culha M.

PLASMONICS , vol.4, no.4, pp.293-301, 2009 (SCI-Expanded, Scopus)

42. Differentiation of Healthy Brain Tissue and Tumors Using Surface-Enhanced Raman Scattering

Aydin O., Altaş M., Kahraman M., Bayrak O. F., Culha M.

APPLIED SPECTROSCOPY , vol.63, no.10, pp.1095-1100, 2009 (SCI-Expanded, Scopus)

43. Interaction of gold nanoparticles with mitochondria

Karatas O. F., Sezgin E., Aydin O., Culha M.

COLLOIDS AND SURFACES B-BIOINTERFACES , vol.71, no.2, pp.315-318, 2009 (SCI-Expanded, Scopus) Sustainable Development

44. Surface-Enhanced Raman Scattering of Rat Tissues

Aydin O., Kahraman M., Kilic E., Culha M.

APPLIED SPECTROSCOPY , vol.63, no.6, pp.662-668, 2009 (SCI-Expanded, Scopus)

45. Size Effect of 3D Aggregates Assembled from Silver Nanoparticles on Surface-Enhanced Raman Scattering

Kahraman M., Aydin O., Culha M.

CHEMPHYSCHEM , vol.10, no.3, pp.537-542, 2009 (SCI-Expanded, Scopus)

Papers Presented at Peer-Reviewed Scientific Conferences 27

1. Investigation of Brucella Infected Body Fluids Using Surface-Enhanced Raman Spectroscopy And Machine Learning

MUTLU SARIGÜZEL F., Akdeniz M., Al-Shaebi Z., SAĞIROĞLU P., ATALAY M. A., AYDIN Ö.

XLI. Türk Mikrobiyoloji kongresi, Antalya, Turkey, 13 November 2024, (Summary Text)

2. Easyvolt: Cost-effective Piezoelectric-Driven Electroporation Device for Enhanced Accessibility and Efficiency

Ahmed A. O., Benk R., Saçu İ. E., Aydın Ö.

5th International Conference on Natural Products for Cancer Prevention and Therapy, İstanbul, Turkey, 7 - 09 July 2024, pp.51, (Summary Text)

3. Smart Polymeric Nanocarriers for miRNA Delivery Against Triple Negative Breast Cancer

Yumuk K., HAMURCU Z., Ayra M. E., Durmaz Y. Y., AYDIN Ö.

9th World Congress on Recent Advances in Nanotechnology, RAN 2024, London, England, 8 - 10 April 2024, (Full Text)

4. Label-free Acute Leukemia Diagnosis from Exosome with SERS and Artificial Intelligence

Akdeniz M., Al-Shaebi Z., Ahmed A. O., KEKLİK M., AYDIN Ö.

9th World Congress on Recent Advances in Nanotechnology, RAN 2024, London, England, 8 - 10 April 2024, (Full Text)

5. Synthesis of Hybrid Nanoparticles Containing siRNA and Quercetin for Targeting Triple-Negative Breast Cancer

Eksi O. B., AYDIN Ö.

9th World Congress on Recent Advances in Nanotechnology, RAN 2024, London, England, 8 - 10 April 2024, (Full Text)

6. A New and Fast Approach for Antimicrobial Resistance Detection: Combination of Artificial Intelligence and Surface-Enhanced Raman Spectra

AYDIN Ö., Al-Shaebi Z., Akdeniz M., Kursunluoglu G., Zarasız G., YERLİTAŞ S. İ., et al.

16th Mediterranean Conference on Medical and Biological Engineering and Computing, MEDICON 2023 and 5th International Conference on Medical and Biological Engineering, CMBEBIH 2023, Sarajevo, Bosnia And Herzegovina, 14 - 16 September 2023, vol.94, pp.98-103, (Full Text)

7. Development of Polymer-Based Nanoparticles for the Reduction of Melittin Toxicity

Chatzi Memet B., Demirpolat E., Yildirim T., Aydın Ö.

8. Bacteria-Cancer Cell Hybrid Membrane-Coated Gold Nanoparticles for Anticancer Therapy

Benk R., Akdeniz M., AYDIN Ö.

9th World Congress on Recent Advances in Nanotechnology, RAN 2024, London, England, 8 - 10 April 2024, (Full Text)

9. DOX-Couped Polymeric Micelles as a State-of-the-Art Strategy Against Triple Negative Breast Cancer

Memet B. C., Yildiz U., Eksi O. B., AYDIN Ö.

9th World Congress on Recent Advances in Nanotechnology, RAN 2024, London, England, 8 - 10 April 2024, (Full Text)

10. EMODIN'S EFFECT ON THE SARS-COV-2 ENVELOP PROTEIN

BEKCİ H., Somtürk B., TUNÇ C. Ü., Yılmaz Ü., AYDIN Ö., AYCAN M. B.

INTERNATIONAL CAPPADOCIA SCIENTIFIC RESEARCH CONGRESS, Nevşehir, Turkey, 15 December 2021, (Summary Text) Sustainable Development

11. Dopamine conjugated Polymer Nanoparticles for Active Targeting

Yılmaz Ü., Memet B. C., AYDIN Ö., Yıldırım T.

4th International Conference On Natural Products for Cancer Prevention and Therapy, Turkey, 18 December 2021, (Summary Text)

12. EMODIN'S EFFECT ON THE SARS-COV-2 ENVELOP PROTEİN

BEKCİ H., SOMTÜRK YILMAZ B., TUNÇ C. Ü., YILMAZ Ü., AYDIN Ö., AYCAN M. B.

INTERNATIONAL CAPPADOCIA SCIENTIFIC RESEARCH CONGRESS, 15 December 2021, (Summary Text) Sustainable Development

13. Comparison of siRNA Loading Quantification between Spherical and Serrated Gold NanoparticlesComparison of siRNA Loading Quantification between Spherical and Serrated Gold Nanoparticles

Kutlu A. Ü., TUNÇ C. Ü., AYDIN Ö.

European Biotechnology Congress, Bulgaria, 23 September 2021, (Summary Text)

14. Delivery of Naproxen thiosemicarbazide/1,2,4-triazole Derived Chemotherapy Drugs Using Gold Nanoparticles

TUNÇ C. Ü., Kurşunluoğlu G., ATALAY DÜNDAR P., HAN M. İ., AYDIN Ö.

INTERNATIONAL CONFERENCE ON APPLIED ENGINEERING AND NATURAL SCIENCES, Turkey, 1 - 03 November 2021, (Summary Text)

15. Detection of colistin resistant Klebsiella pneumoniae bacteria using surfaceenhanced Raman spectroscopy combined with machine learning

UYSAL F., Hora M., GÜNDOĞDU A., TOKMAKÇI M., AYDIN Ö.

BIO Türkiye Organizasyonu Uluslararası Biyoteknoloji Kongresi, Turkey, 9 - 11 September 2021, (Full Text)

16. Investigation of Mammalian Cells Expressing SARS-CoV-2 Proteins by Surface-Enhanced Raman Scattering

AKDENİZ M., AYDIN Ö.

BIO Türkiye - International Biotechnology Congress, Turkey, 09 September 2021, (Full Text) Sustainable Development

17. Surface enhanced Raman Spectroscopy Applications in Biomedical Engineering

AYDIN Ö.

International Materials Science and Nanotechology for Next Generation Conference (MSNG 2021), Elazığ, Turkey, 14 July 2021, (Summary Text)

18. Development of Gold Nanoparticle Templated Nucleic Acid Assembly for Gene and Drug Delivery

TUNÇ C. Ü., AYDIN Ö.

International Materials Science and Nanotechology for Next Generation Conference (MSNG 2021), Elazığ, Turkey, 14 July 2021, (Summary Text)

19. Microbial Identification with a New Perspective: Surface-Enhanced Raman Spectroscopy with Machine Learning Techniques

UYSAL F., Sarıdağ A. M., KILIÇ İ. H., TOKMAKÇI M., KAHRAMAN M., AYDIN Ö.

2nd International Conference on Access to Recent Advances in Engineering and Digitalization, Kayseri, Turkey, 10 March 2021, (Summary Text)

20. Triple-combination therapy against cisplatin-resistant ovarian cancer cells

Kip B., Aydın Ö.

International Congress on Biological and Health Sciences, Afyonkarahisar, Turkey, 26 - 28 February 2021, pp.169, (Summary Text)

21. Investigation of Mammalian Cells Expressing SARS-CoV-2 Proteins by Surface-Enhanced Raman Scattering (SERS)

Akdeniz M., Uysal Çiloğlu F., Tunc C. U., Atalay Dündar P., Aydın Ö.

International Congress on Biological and Health Sciences, Afyonkarahisar, Turkey, 26 - 28 February 2021, pp.168, (Summary Text) Sustainable Development

22. Cryptosporidium parvum Ookistlerinin Yüzeyde Zenginleştirilmiş Raman Saçılması (SERS) ile İncelenmesi

Arslan A. H., Uysal Çiloğlu F., Yılmaz Ü. G., Şimşek E., Aydın Ö.

V. Yaşam Bilimleri Kongresi, Kayseri, Turkey, 21 - 22 February 2020, pp.33, (Summary Text)

23. Antibiyotik Dirençli ve Duyarlı Staphylococcus aureus Suşlarının Yüzeyde Zenginleştirilmiş Raman Spektroskopisi ve Temel Bileşen Analizi ile Hızlı Tespiti

Uysal Çiloğlu F., Tokmakçı M., Kahraman M., Kılıç İ. H., Aydın Ö.

V. Yaşam Bilimleri Kongresi, Kayseri, Turkey, 21 - 22 February 2020, pp.21-22, (Summary Text)

Books 1

1. Determination of Optimum Ratio of Cationic Polymers and Small Interfering RNA with Agarose Gel Retardation Assay

AYDIN Ö., Yılmaz Ü., KANARYA D., TUNÇ C. Ü.

in: Antisense RNA Design, Delivery, and Analysis. Methods in Molecular Biology, vol 2434, Arechavala-Gomeza V; Garanto Alex, Editor, Humana, New York, NY Springer Nature, New York, pp.117-128, 2022

Episodes in the Encyclopedia 1

1. Encyclopedia of Nanoscience and Nanotechnology,

ÇULHA M., KAHRAMAN M., KARATAŞ Ö. F., AYDIN Ö.

American Scientific Publishers, pp., 2009

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