English MyKHAS

mbg / Yayınlar

2023

  • Sireci, S., Kocagöz, Y., Alkiraz, A. S., Güler, K., Dokuzluoglu, Z., Balcioglu, E., Meydanli, S., Demirler, M. C., Erdoğan, N. M., & Fuss, S. H. (2023). HB‐EGF promotes progenitor cell proliferation and sensory neuron regeneration in the zebrafish olfactory epithelium. The FEBS Journal.

DOI: https://doi.org/10.1111/febs.17033

  • Büşra Osma, Önder Pekcan, Gülşen Akın Evingür “ Kinetic Models For PAAm-GO Composites As Antifoulant “Polymer Engineering and Science (2023) ; 63:238–248.

DOI:10.1002/pen.26201

  • Ünver, G. Evingür and Ö Pekcan” Optical and Mechanical PROPERTIES OF PNIPAm-MWCNTs and PNIPAm-GO COMPOSITES “ Journal of Applied Polymer Science 140,9, e53539( 2023).

https://doi.org/10.1002/app.53539

  • Emin Istif, Levent Beker, ” A low-cost wireless miniaturized device for food spoilage monitoring”, Nature Food volume 4, pages364–365 (2023)

https://doi.org/10.1038/s43016-023-00752-7

  • Emin Istif, Hadi Mirzajani, Çağdaş Dağ, Fariborz Mirlou, Elif Yaren Ozuaciksoz, Cengiz Cakır, Hatice Ceylan Koydemir, Iskender Yilgor, Emel Yilgor, Levent Beker, “Miniaturized wireless sensor enables real-time monitoring of food spoilage”, Nature Food volume 4, pages427–436 (2023)

https://doi.org/10.1038/s43016-023-00750-9

  • Arsan, Ö. Pekcan “Chaotic-Deterministic and/or Random Nature of Earth Quakes; A Phase Space Analysis“.Symmetry: Culture and Science Pg 45-59, Vol. 34, No.1, (2023) .
  • Arda, S. Kara, F. Dolaştır and Ö. Pekcan, G. Evingür” A QCM Study on Formation Of Aquaous K-Carrageenan-Chitosan Composite Bilayers with NaCl And GO” J. Macromolecular Sci. Phys. B, online: 02 Jun 2023.
  • Selcuk Ogrenci, Metehan Incegul, Önder Pekcan, A. Humeyra Bilge “Epidemic Models for Chemical Gel Phase Transformation: Effect of Optical Measurements with Different Wavelengths” J. macromol Sci.Phys. B 62,2, 2023/4/17.
  • Zeynep Kalaycıoğlu, Bengü Özuğur Uysal, Önder Pekcan, F. Bedia Erim*” Efficient photocatalytic degradation of methylene blue dye from aqueous solution with cerium oxide nanoparticles and graphene oxide doped polyacrylamide” ACS Omega 2023/3/29.

DOI: 10.1021/acsomega.3c00198

  • Baykaş, F. Kaan, A. F. Gürsoy M. Hekimoğlu and Ö. Pekcan “Residual LSTM Neural Network for Time Dependent Consecutiv Pitch  String Recognition from Spectrograms: A Study on Turkish Classical Music Makams”, (in press) Multimedia Tools and Applications.
  • Sarah Boumezber; Kemal Yelekci, “Synthesizing of novel and selective inhibitors for neuronal nitric oxide synthase (nNOS) via structure-based drug design techniques”, JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2023) 41 (8) p.3607-3629,

DOI:10.1080/07391102.2022.2054471

  • Ecem Gokoglan; Damla Dere; Ipek Bedir; Kemal Yelekci; Dilek Telci; S. Guniz Kucukguzel; K., “Synthesis and investigation of cytotoxic effects of compounds derived from flurbiprofen”, JOURNAL OF MOLECULAR STRUCTURE (2023) 1289,

DOI: 10.1016/j.molstruc.2023.135876

  • Gizem Erensoy; Kai Ding; Chang-Guo Zhan; Gamze Ciftci; Kemal Yelekci; Merve Duracik; Ozlem Bingol Ozakpinar; Esra Aydemir; Zubeyde Nur Yilmaz; Fikrettin Sahin; Necla Kulabas; Esra Tatar; Ilkay Kucukguzel., “Synthesis, in vitro and in silico studies on novel 3-aryloxymethyl-5-[(2-oxo-2-arylethyl)sulfanyl]-1,2,4-triazoles and their oxime derivatives as potent inhibitors of mPGES-1”, JOURNAL OF MOLECULAR STRUCTURE (2023),

DOI: 1272,: 10.1016/j.molstruc.2022.134154

  • İlker Demirbolat; Necla Kulabas; Merve Gurboga; Ozlem Bingol ozakpinar; Gamze Çiftci;  Kemal Yelekci; Jianyang Liu; Per-Johan Jakobsson; Ozkan Danis; Ayse Ogan; Ilkay Küçükgüzel, “Synthesis and evaluation of antiproliferative and mPGES-1 inhibitory activities of novel carvacrol-triazole conjugates” ORGANIC COMMUNICATIONS (OCT-DEC 2022),  15 (4), p.  356-377.

DOI: 10.25135/acg.oc.142.2212.2651

  • Yelekçi, K., Erdem, S.S. (2023). Computational Chemistry and Molecular Modeling of Reversible MAO Inhibitors. In: Binda, C. (eds) Monoamine Oxidase. Methods in Molecular Biology, vol 2558.  Springer Nature, Humana, New York, NY.

https://doi.org/10.1007/978-1-0716-2643-6_17.

  • Mohsin Ali, Mohammad Javad Bathaei, Emin Istif, Seyed Nasir Hosseini Karimi, Levent Beker, “Biodegradable Piezoelectric Polymers: Recent Advancements in Materials and Applications”, Adv. Healthcare Mater.2023,12, 2300318

https://doi.org/10.1002/adhm.202300318

  • Taher Abbasiasl, Fariborz Mirlou, Hadi Mirzajani, Mohammad Javad Bathaei, Emin Istif, Narges Shomalizadeh, Rümeysa Emine Cebecioğlu, Ecem Ezgi Özkahraman, Umut Can Yener, Levent Beker, “A Wearable Touch‐Activated Device Integrated with Hollow Microneedles for Continuous Sampling And Sensing of Dermal Interstitial Fluid”, Advanced Materials,

doi.org/10.1002/adma.202304704

  • Özkan Danış, Mohammad Musa Shirzad, Necla Kulabaş, Ömer Erdoğan, Özge Çevik, Damla Dere, Kemal Yelekçi, lkay Küçükgüzel, “Novel azole-urea hybrids as VEGFR-2 inhibitors: Synthesis, in vitro antiproliferative evaluation and in silico studies”, JOURNAL OF MOLECULAR STRUCTURE (2023), (Received minor revision).

https://doi.org/10.1016/j.molstruc.2023.136448

  • Mohsin Ali, Emin Istif, Mohammad Javad Bathaei, Levent Beker, “Investigation of dynamic micromechanical properties of biodegradable elastic material by continuous stiffness measurement analysis”, Journal of Elastomers & PlasticsVolume 55, Issue 7, November 2023, Pages 1111-1122

https://doi.org/10.1177/00952443231196278

  • G. Akın Evingur, Önder Pekcan, Editors “Application and Characterization of Rubber Material” IntechOpen Limited, London, January, 2023).

DOI: 10.5772/intechopen.102183 

  • Edited by G. Akın Evingur, Önder Pekcan “Elasticity of Materials” Intech Open Limited, London, May, 2023 .

2022

  • Celebi M.; Inan T.; Kurkcuoglu O.; Akten E. D. Potential allosteric sites captured in glycolytic enzymes via residue-based network models: Phosphofructokinase, glyceraldehyde-3-phosphate dehydrogenase and pyruvate kinase. Chem. 2022, 280, 106701.

doi: 10.1016/j.bpc.2021.106701  

  • Oguz, F. S.; Oguz, S. R.; Ogret, Y.; Karadeniz, T. S.; Senturk Ciftci, H.; Karatas, S.; Kivanc, D.; Aydin, F. Distribution of HLA epitope frequencies in Turkish population. Turkish J. of Biochemistry, 2022, 2022, 1-6.

doi: 10.1515/tjb-2021-0083   

  • Celebi, M.; Akten, E. D. Altered Dynamics of S. Aureus Phosphofructokinase via Bond Restraints at Two Distinct Allosteric Binding Sites. J. Mol. Biol. 2022, 167646.

doi: 10.1016/J.JMB.2022.167646  

  • Polat, E. O.; Cetin, M. M.; Tabak, A. F.; Güven, E. B.; Uysal, B. Ö.; Arsan, T.; Kabbani, A.; Hamed, H.; Gül, S. B. Transducer Technologies for Biosensors and Their Wearable Applications. Biosens. 2022, 12(6), 385.

doi: 10.3390/BIOS12060385

  • Özuğur Uysal, B.; Akın Evingür, G.; Pekcan, Ö. Polyacrylamide Mediated Polyvinyl Pyrrolidone Composites Incorporated with Aligned Molybdenum Disulfide. J. Appl. Polym. Sci. 2022, 139(18), 52061.

doi: 10.1002/APP.52061

doi: 10.1140/EPJS/S11734-022-00512-X

  • Braun, T.; Fernandez, C. N.; Eroglu, D.; Hartland, A.; Breitenbach, S. F. M.; Marwan, N. Sampling Rate-Corrected Analysis of Irregularly Sampled Time Series. Phys. Rev. E 2022, 105 (2), 024206.

doi: 10.1103/PHYSREVE.105.024206/FIGURES/9/MEDIUM

  • Boumezber, S.; Yelekçi, K. Screening of Novel and Selective Inhibitors for Neuronal Nitric Oxide Synthase (NNOS) via Structure-Based Drug Design Techniques. J. Biomol. Struct. Dyn. 2022.

doi: 10.1080/07391102.2022.2054471

  • Albayati, S.; Uba, A. I.; Yelekçi, K. Potential Inhibitors of Methionine Aminopeptidase Type II Identified via Structure-Based Pharmacophore Modeling. Mol. Divers. 2022, 26(2), 1005–1016.

doi: 10.1007/S11030-021-10221-7/FIGURES/5

  • Birgül, K.; Uba, A. I.; Çuhadar, O.; Sevinç, S. K.; Tiryaki, S.; Tiber, P. M.; Orun, O.; Telci, D.; Yılmaz, Ö.; Yelekçi, K.; Güniz Küçükgüzel. Synthesis and Molecular Modeling of MetAP2 of Thiosemicarbazides, 1,2,4-Triazoles, Thioethers Derived from (S)-Naproxen as Possible Breast Cancer Agents. J. Mol. Struct. 2022, 1259.

doi: 10.1016/J.MOLSTRUC.2022.132739

2021

  • Aksoy, H.; Şekerler, T.; Mert, N. M. In Silico Investigation of Wound Healing Potential of Some Compounds in Tubers of Asphodelus Species with GSK3-β Protein. Res. Pharm. 2021, 25(5) (25(5)), 740–747.

doi: 10.29228/jrp.65.

  • Al-Obaidi, A.; Elmezayen, A. D.; Yelekçi, K. Homology Modeling of Human GABA-AT and Devise Some Novel and Potent Inhibitors via Computer-Aided Drug Design Techniques. Biomol. Struct. Dyn. 2021, 39 (11), 4100–4110.

doi: 10.1080/07391102.2020.1774417.

  • Albayati, S.; Uba, A. I.; Yelekçi, K. Potential Inhibitors of Methionine Aminopeptidase Type II Identified via Structure-Based Pharmacophore Modeling. Divers. 2021.

doi: 10.1007/s11030-021-10221-7.

  • Arda, E.; Kara, S.; Pekcan, Ö.; Akın Evingür, G. Evaluation of the Fractal Dimension of Polyacrylamide during Gelation and Swelling. Today Commun. 2021, 26, 101980.

doi: 10.1016/j.mtcomm.2020.101980.

  • Banerjee, A.; Goswami, B.; Hirata, Y.; Eroglu, D.; Merz, B.; Kurths, J.; Marwan, N. Recurrence Analysis of Extreme Event-like Data. Nonlinear Process. Geophys. 2021, 28 (2), 213–229.

doi: 10.5194/npg-28-213-2021.

  • Beytur, S. Marker Residue Types at the Structural Regions of Transmembrane Alpha‐helical and Beta‐barrel Interfaces. Proteins Struct. Funct. Bioinforma. 2021, 89 (9), 1145–1157.

doi: 10.1002/prot.26087.

  • Dutta, K.; Elmezayen, A. D.; Al-Obaidi, A.; Zhu, W.; Morozova, O. V.; Shityakov, S.; Khalifa, I. Seq12, Seq12m, and Seq13m, Peptide Analogues of the Spike Glycoprotein Shows Antiviral Properties against SARS-CoV-2: An in Silico Study through Molecular Docking, Molecular Dynamics Simulation, and MM-PB/GBSA Calculations. Mol. Struct. 2021, 1246, 131113.

doi: 10.1016/j.molstruc.2021.131113.

  • Düzkan, B.; Uysal, B. Ö.; Pekcan, Ö. Surfactant-Free One-Step Fabrication of Gelatin/PAAm/MWCNT Composites for Biomedical Applications. Bull. 2021.

doi: 10.1007/s00289-021-03574-4.

  • Elmezayen, A. D.; Al-Obaidi, A.; Yelekçi, K. Discovery of Novel Isoform-Selective Histone Deacetylases 5 and 9 Inhibitors through Combined Ligand-Based Pharmacophore Modeling, Molecular Mocking, and Molecular Dynamics Simulations for Cancer Treatment. Mol. Graph. Model. 2021, 106, 107937.

doi: 10.1016/j.jmgm.2021.107937.

  • Elmezayen, A. D.; Al-Obaidi, A.; Şahin, A. T.; Yelekçi, K. Drug Repurposing for Coronavirus (COVID-19): In Silico Screening of Known Drugs against Coronavirus 3CL Hydrolase and Protease Enzymes. Biomol. Struct. Dyn. 2021, 39 (8), 2980–2992.

doi: 10.1080/07391102.2020.1758791.

  • Elmezayen, A. D.; Yelekçi, K. Structure-Based Virtual Screening for Novel Potential Selective Inhibitors of Class IIa Histone Deacetylases for Cancer Treatment. Biol. Chem. 2021, 92, 107491.

doi: 10.1016/j.compbiolchem.2021.107491.

  • Elmezayen, A. D.; Yelekçi, K. Homology Modeling and in Silico Design of Novel and Potential Dual-Acting Inhibitors of Human Histone Deacetylases HDAC5 and HDAC9 Isozymes. Biomol. Struct. Dyn. 2021, 39 (17), 6396–6414.

doi: 10.1080/07391102.2020.1798812.

  • Essiz, S.; Gencel, M.; Aktolun, M.; Demir, A.; Carpenter, T. S.; Servili, B. Correlated Conformational Dynamics of the Human GluN1-GluN2A Type N-Methyl-D-Aspartate (NMDA) Receptor. Mol. Model. 2021, 27 (6), 162.

doi: 10.1007/s00894-021-04755-8.

  • Evingür, G. A.; Sağlam, N. A.; Çimen, B.; Uysal, B. Ö.; Pekcan, Ö. The WS 2 Dependence on the Elasticity and Optical Band Gap Energies of Swollen PAAm Composites. Compos. Mater. 2021, 55 (1), 71–76.

doi: 10.1177/0021998320944210.

  • Hu, G.; Doruker, P.; Li, H.; Demet Akten, E. Editorial: Understanding Protein Dynamics, Binding and Allostery for Drug Design. Mol. Biosci. 2021, 8.

doi: 10.3389/fmolb.2021.681364.

  • Marwan, N.; Donges, J. F.; Donner, R. V.; Eroglu, D. Nonlinear Time Series Analysis of Palaeoclimate Proxy Records. Sci. Rev. 2021, 274, 107245.

doi: 10.1016/j.quascirev.2021.107245.

  • Metin, R.; Akten, E. D. Drug Repositioning to Propose Alternative Modulators for Glucocorticoid Receptor through Structure-Based Virtual Screening. Biomol. Struct. Dyn. 2021, 1–16.

doi: 10.1080/07391102.2021.1960608.

  • Nayır, Ş.; Kıvrak, S.; Kara, İ.; Uysal, B. Ö.; Pekcan, Ö. Tungsten Disulfide (WS2) Doped Polyacrylamide (PAAm) Composites: Gelation and Optical Studies. Optik (Stuttg). 2021, 245, 167673.

doi: 10.1016/j.ijleo.2021.167673.

  • Özuğur Uysal, B.; Akın Evingür, G.; Pekcan, Ö. Polyacrylamide Mediated Polyvinyl Pyrrolidone Composites Incorporated with Aligned Molybdenum Disulfide. Appl. Polym. Sci. 2021, 52061.

doi: 10.1002/app.52061.

  • Salgin-Goksen, U.; Telli, G.; Erikci, A.; Dedecengiz, E.; Tel, B. C.; Kaynak, F. B.; Yelekci, K.; Ucar, G.; Gokhan-Kelekci, N. New 2-Pyrazoline and Hydrazone Derivatives as Potent and Selective Monoamine Oxidase A Inhibitors. Med. Chem. 2021, 64 (4), 1989–2009.

doi: 10.1021/acs.jmedchem.0c01504.

  • Nayır, Ş.; Kıvrak, S.; Kara, İ.; Uysal, B. Ö.; Pekcan, Ö. Tungsten Disulfide (WS2) Doped Polyacrylamide (PAAm) Composites: Gelation and Optical Studies. Optik (Stuttg). 2021, 245, 167673.

doi: 10.1016/J.IJLEO.2021.167673

2020

  • Atilgan, A.; Cetin, M. M.; Yu, J.; Beldjoudi, Y.; Liu, J.; Stern, C. L.; Cetin, F. M.; Islamoglu, T.; Farha, O. K.; Deria, P.; Stoddart, J. F.; Hupp, J. T. Post-Synthetically Elaborated BODIPY-Based Porous Organic Polymers (POPs) for the Photochemical Detoxification of a Sulfur Mustard Simulant. Am. Chem. Soc. 2020, 142 (43), 18554–18564.

doi: 10.1021/jacs.0c07784.

  • Ayyildiz, M.; Celiker, S.; Ozhelvaci, F.; Akten, E. D. Identification of Alternative Allosteric Sites in Glycolytic Enzymes for Potential Use as Species-Specific Drug Targets. Mol. Biosci. 2020, 7, 88.

doi: 10.3389/fmolb.2020.00088.

  • Birgül, K.; Yıldırım, Y.; Karasulu, H. Y.; Karasulu, E.; Uba, A. I.; Yelekçi, K.; Bekçi, H.; Cumaoğlu, A.; Kabasakal, L.; Yılmaz, Ö.; Küçükgüzel, Ş. G. Synthesis, Molecular Modeling, in Vivo Study and Anticancer Activity against Prostate Cancer of (+) (S)-Naproxen Derivatives. J. Med. Chem. 2020, 208, 112841.

doi: 10.1016/j.ejmech.2020.112841.

  • Ding, K.; Zhan, C.-G.; Elmezayen, A.; Yelekçi, K.; Erensoy, G. Synthesis, in Silico Studies and Cytotoxicity Evaluation of Novel 1,3,4-Oxadiazole Derivatives Designed as Potential MPGES-1 Inhibitors. Res. Pharm. 2020, 24 (4), 436–451.

doi: 10.35333/jrp.2020.187.

  • Eroğlu, D. Network Dynamics Reconstruction from Data. TURKISH J. Phys. 2020, 44 (4), 394–403.

doi: 10.3906/fiz-2004-7.

  • Eroglu, D.; Tanzi, M.; van Strien, S.; Pereira, T. Revealing Dynamics, Communities, and Criticality from Data. Rev. X 2020, 10 (2), 021047.

doi: 10.1103/PhysRevX.10.021047. 

  • Evingür, G. A.; Pekcan, Ö. Fractal Dimension and Phase Transition of Graphene Oxide (GO) Doped Polyacrylamide. Test. 2020, 84, 106386.

doi: 10.1016/j.polymertesting.2020.106386.

  • Evingür, G. A.; Sağlam, N. A.; Çimen, B.; Uysal, B. Ö.; Pekcan, Ö. The WS 2 Dependence on the Elasticity and Optical Band Gap Energies of Swollen PAAm
  • Kucukdumlu, A.; Tuncbilek, M.; Guven, E. B.; Atalay, R. C. Design, Synthesis and In Vitro Cytotoxic Activity of New 6,9-Disubstituted Purine Analogues. Acta Chim. Slov. 2020, 67 (1), 70–82.

doi: 10.17344/acsi.2019.5196.

  • Prasad, S.; Marwan, N.; Eroglu, D.; Goswami, B.; Mishra, P. K.; Gaye, B.; Anoop, A.; Basavaiah, N.; Stebich, M.; Jehangir, A. Holocene Climate Forcings and Lacustrine Regime Shifts in the Indian Summer Monsoon Realm. Earth Surf. Process. Landforms 2020, 45 (15), 3842–3853.

doi: 10.1002/esp.5004.

  • Şahin, H. B.; Sayın, S.; Holder, M.; Buğra, K.; Çelik, A. Salt Inducible Kinases as Novel Notch Interactors in the Developing Drosophila Retina. PLoS One 2020, 15 (6), e0234744.

doi: 10.1371/journal.pone.0234744.

  • Sari, S.; Kart, D.; Öztürk, N.; Kaynak, F. B.; Gencel, M.; Taşkor, G.; Karakurt, A.; Saraç, S.; Eşsiz, Ş.; Dalkara, S. Corrigendum to “Discovery of New Azoles with Potent Activity against Candida Spp. and Candida Albicans Biofilms through Virtual Screening” [Eur. J. Med. Chem. 179 (2019) 634–648]. J. Med. Chem. 2020, 190 (11), 112130.

doi: 10.1016/j.ejmech.2020.112130.

  • Sogunmez, N.; Akten, E. D. Distinctive Communication Networks in Inactive States of β 2 ‐adrenergic Receptor: Mutual Information and Entropy Transfer Analysis. Proteins Struct. Funct. Bioinforma. 2020, 88 (11), 1458–1471.

doi: 10.1002/prot.25965.

  • Sunay, M. S.; Uğur, Ş.; Pekcan, Ö. Fluorescence and Photon Transmission Techniques for Studying Film Formation from PS/GO Nanocomposites. Bull. 2020, 77 (6), 3061–3077.

doi: 10.1007/s00289-019-02897-7.

  • Uba, A. I.; Yelekçi, K. Crystallographic Structure versus Homology Model: A Case Study of Molecular Dynamics Simulation of Human and Zebrafish Histone
  • Uysal, B. Ö.; Arier, Ü. Ö. A.; Pekcan, Ö. Tailoring the Electrical and Optical Properties of Carbon Nanotube Reinforced Transparent TiO2 Composites By Varying Nanotube Concentrations. Rev. Lett. 2020, 27 (02), 1950103.

doi: 10.1142/S0218625X19501038.

  • Weako, J.; Uba, A. I.; Keskin, Ö.; Gürsoy, A.; Yelekçi, K. Identification of Potential Inhibitors of Human Methionine Aminopeptidase (Type II) for Cancer Therapy: Structure-Based Virtual Screening, ADMET Prediction and Molecular Dynamics Studies. Biol. Chem. 2020, 86, 107244.

doi: 10.1016/j.compbiolchem.2020.107244.

  • Yılmaz, Ö.; Bayer, B.; Bekçi, H.; Uba, A. I.; Cumaoğlu, A.; Yelekçi, K.; Küçükgüzel, Ş. G. Synthesis, Anticancer Activity on Prostate Cancer Cell Lines and Molecular Modeling Studies of Flurbiprofen-Thioether Derivatives as Potential Target of MetAP (Type II). Chem. (Los. Angeles). 2020, 16 (6), 735–749.

doi: 10.2174/1573406415666190613162322.