| Al-Rubaye, Tala; Isa, Zenab; Erenkol, Doga; Tarahomi, Elham; Erdogan, Nuray Sogunmez (2026), "Multi-omics profiling uncovers LINC00486-associated lncRNA regulation in human traumatic brain injury", Genes and Genomics, Vol.48, No.1, 45-62 DOI: 10.1007/s13258-025-01687-y |
| Fidan, Vahap Gazi; Aydin, Dilvin; Yazgi, Irem; Akten, E. Demet (2026), "Reshaping globular dynamics of S. aureus pyruvate kinase via bond restraints to allosteric sites", Journal of Computer Aided Molecular Design, Vol.40, No.1, DOI: 10.1007/s10822-025-00713-1 |
| Lima, Henrique Santos; Tsallis, Constantino; Eroglu, Deniz; Tirnakli, Ugur (2026), "Fourier's law breakdown for the planar-rotor chain with long-range interactions", Physica A Statistical Mechanics and Its Applications, Vol.685, DOI: 10.1016/j.physa.2026.131314 |
| Kocagöz, Yigit; Erdogan, Nuray Sogunmez; Ozdinc, Sevval; Ipekgil, Dogac; Katkat, Esra; Ozhan, Gunes (2026), "Notum1a Inhibition promotes neurogenesis in the adult zebrafish brain", Scientific Reports, Vol.16, No.1, DOI: 10.1038/s41598-025-33883-x |
| Hassan, Gana; Özuğur Uysal, Bengü (2025), "Effect of MoS2 on Simple and Novel PEG/κ-Carrageenan Hydrogels for TNBC Cancer Drug Delivery", Journal of Macromolecular Science, Part B: Physics, Vol.64, No.2, 135-149 DOI: 10.1080/00222348.2024.2338631 |
| Das, Ritu; Istif, Emin; Cebecioglu, Rumeysa; Ali, Mohsin; Atik, Yasin; Dağ, Çağdaş; Celikbas, Eda; Demirci, Gozde; Acar, Funda Yagcı; Hasanreisoğlu, Murat; Beker, Levent (2025), "Microneedles with Interdigitated Electrodes for In Situ Impedimetric VEGF Sensing", Advanced Materials Interfaces, Vol.12, No.9, DOI: 10.1002/admi.202400789 |
| Yüksek, Aslı; Yıkınç, Batuhan; Nayır, İrem; Alnıgeniş, Defne; Fidan, Vahap Gazi; Topuz, Tayyip; Akten, Ebru Demet (2025), "Structural Descriptors for Subunit Interface Regions in Homodimers: Effect of Lipid Membrane and Secondary Structure Type", Journal of Chemical Information and Modeling, Vol.65, No.7, 3117-3126 DOI: 10.1021/acs.jcim.4c01233 |
| Kökrek, Emel; Pir, Pınar (2025), "Distinct deregulation trends of transcriptional protein complexes in aging naive T cells", Journal of Leukocyte Biology, Vol.117, No.3, DOI: 10.1093/jleuko/qiae231 |
| Yılmaz, Özgür; Biliz, Yağmur; Ayan, Sümeyra; Çevik, Özge; Karahasanoğlu, Müfide; Çotuker, Reyhan; Mert Şahin, Naz Mina; Gökkaya, Kübra; Gülyüz, Sevgi; Yelekçi, Kemal; Küçükgüzel, Güniz (2025), "Design and synthesis of thiosemicarbazides and 1,2,4-triazoles derived from ibuprofen as potential MetAP (type II) inhibitors", Chemico-Biological Interactions, Vol.416, DOI: 10.1016/j.cbi.2025.111555 |
| Mirza, Fuat Kaan; Pekcan, Önder; Hekimoğlu, Mustafa; Baykaş, Tunçer (2025), "Stock price forecasting through symbolic dynamics and state transition graphs with a convolutional recurrent neural network architecture", Neural Computing and Applications, Vol.37, No.20, 15855-15890 DOI: 10.1007/s00521-025-11325-z |
| Mirza, Fuat Kaan; Baykaş, Tunçer; Hekimoğlu, Mustafa; Pekcan, Önder; Tunçay, Gönül Paçacı (2025), "Decoding rhythmic complexity: A nonlinear dynamics approach via visibility graphs for classifying asymmetrical rhythmic frameworks of Turkish classical music", Applied Mathematics and Computation, Vol.507, DOI: 10.1016/j.amc.2025.129565 |
| Erdogan, Nuray Sogunmez; Eroglu, Deniz (2025), "Sparse deconvolution of cell type medleys in spatial transcriptomics", Plos Computational Biology, Vol.21, No.6 JUNE, DOI: 10.1371/journal.pcbi.1013169 |
| Mirza, Fuat Kaan; Öz, Usame; Hekimoğlu, Mustafa; Aydemir, Mehmet Timur; Pural, Yusuf Enes; Baykaş, Tunçer; Pekcan, Önder (2025), "A Novel Multiscale Graph Signal Processing and Network Dynamics Approach to Vibration Analysis for Stone Size Discrimination via Nonlinear Manifold Embeddings and a Convolutional Self-Attention Model", Rock Mechanics and Rock Engineering, Vol.58, No.11, 12769-12799 DOI: 10.1007/s00603-025-04779-z |
| Birgül, Kaan; Atlıhan, İrem; Dere, Damla; Yelekçi, Kemal; Tiber, Pinar Mega; Orun, Oya; Küçükgüzel, Güniz (2025), "Investigation of novel nimesulide derivatives against breast cancer", Bioorganic Chemistry, Vol.164, DOI: 10.1016/j.bioorg.2025.108850 |
| Firat, Toprak; Eroglu, Deniz (2025), "Data-driven modeling of traffic flow in macroscopic network systems", Chaos, Vol.35, No.9, DOI: 10.1063/5.0285930 |
| Ozdes, Celik; Ediger, Volkan; Eroglu, Deniz (2025), "Forecasting critical economic & political events via electricity consumption patterns in the United States of America and Turkey", Humanities and Social Sciences Communications, Vol.12, No.1, DOI: 10.1057/s41599-025-04904-x |
| Tülek, Ahmet; Poyraz, Yağmur; Şükür, Gözde; Paçal, Nurettin; Özdemir, F. İnci; Yildirim, Deniz; Eşsiz, Şebnem (2025), "Engineering of Geobacillus kaustophilus lipase for enhanced catalytic efficiency and methanol tolerance in biodiesel production from sunflower oil", International Journal of Biological Macromolecules, Vol.331, DOI: 10.1016/j.ijbiomac.2025.148467 |
| Mirza, Fuat Kaan; Gürsoy, Ahmet Fazıl; Baykaş, Tunçer; Hekimoğlu, Mustafa; Pekcan, Önder (2024), "Residual LSTM neural network for time dependent consecutive pitch string recognition from spectrograms: a study on Turkish classical music makams", Multimedia Tools and Applications, Vol.83, No.14, 41243-41271 DOI: 10.1007/s11042-023-17105-y |
| Abbasiasl, Taher; Mirlou, Fariborz; Mirzajani, Hadi; Bathaei, Mohammad Javad; Istif, Emin; Shomalizadeh, Narges; Cebecioğlu, Rümeysa Emine; Özkahraman, Ecem Ezgi; Yener, Umut Can; Beker, Levent (2024), "A Wearable Touch-Activated Device Integrated with Hollow Microneedles for Continuous Sampling and Sensing of Dermal Interstitial Fluid", Advanced Materials, Vol.36, No.2, DOI: 10.1002/adma.202304704 |
| Sireci, Siran; Kocagöz, Yigit; Alkiraz, Aysu Sevval; Güler, Kardelen; Dokuzluoglu, Zeynep; Balcioglu, Ecem; Meydanli, Sinem; Demirler, Mehmet Can; Erdogan, Nuray Sögünmez; Fuss, Stefan Herbert (2024), "HB-EGF promotes progenitor cell proliferation and sensory neuron regeneration in the zebrafish olfactory epithelium", FEBS Journal, Vol.291, No.10, 2098-2133 DOI: 10.1111/febs.17033 |
| Guner-Yılmaz, Ozde Zeynep; Kurkcuoglu, Ozge; Akten, Ebru Demet (2024), "Tunnel-like region observed as a potential allosteric site in Staphylococcus aureus Glyceraldehyde-3-phosphate dehydrogenase", Archives of Biochemistry and Biophysics, Vol.752, DOI: 10.1016/j.abb.2023.109875 |
| Istif, Emin; Ali, Mohsin; Ozuaciksoz, Elif Yaren; Morova, Yagız; Beker, Levent (2024), "Near-Infrared Triggered Degradation for Transient Electronics", ACS Omega, Vol.9, No.2, 2528-2535 DOI: 10.1021/acsomega.3c07203 |
| Özuğur Uysal, Bengü; Osma, Büşra; Evingür, Gülşen Akın; Pekcan, Önder (2024), "The Effect of Pyranine and MoS2 Content on the Optical Properties of Polyacrylamide-MoS2 Composite Gels", Journal of Macromolecular Science, Part B: Physics, Vol.63, No.11, 1097-1109 DOI: 10.1080/00222348.2024.2302287 |
| Mirlou, Fariborz; Abbasiasl, Taher; Mirzajani, Hadi; Istif, Emin; Akhtar, Muhammad Junaid; Cakır, Cengiz; Beker, Levent (2024), "Continuous Glycemic Monitoring Enabled by A Wi-Fi Energy-Harvesting Wearable Sweat-Sensing Patch", Advanced Materials Technologies, Vol.9, No.7, DOI: 10.1002/admt.202301583 |
| Albayrak Halac, Fatma; Essiz, Sebnem; Servili, Burak; Altundas, Ramazan; Onur Sucu, Bilgesu; Kulu, Irem (2024), "Synthesis of New Imidazo[1,2-a]pyridine Triazole Hybrid Molecules as Potential Apoptotic Antitumor Agents", ChemistrySelect, Vol.9, No.8, DOI: 10.1002/slct.202304911 |
| Bakrani, Sajjad; Kiran, Narcicegi; Eroglu, Deniz; Pereira, Tiago (2024), "Cycle-Star Motifs: Network Response to Link Modifications", Journal of Nonlinear Science, Vol.34, No.4, DOI: 10.1007/s00332-024-10034-6 |
| Mert, Naz Mina; Erdogan, Buse; Yelekçi, Kemal (2024), "Repurposing of known drugs from multiple libraries to identify novel and potential selective inhibitors of HDAC6 via in silico approach and molecular modeling", Heliyon, Vol.10, No.15, DOI: 10.1016/j.heliyon.2024.e35020 |
| Eroglu, Deniz; Boghosian, Bruce M.; Borges, Ernesto P.; Tirnakli, Ugur (2024), "The Statistics of q-Statistics", Entropy, Vol.26, No.7, DOI: 10.3390/e26070554 |
| Mirza, Fuat Kaan; Baykaş, Tunçer; Hekimoğlu, Mustafa; Pekcan, Önder; Tunçay, Gönül Paçacı (2024), "Decoding compositional complexity: Identifying composers using a model fusion-based approach with nonlinear signal processing and chaotic dynamics", Chaos, Solitons and Fractals, Vol.187, DOI: 10.1016/j.chaos.2024.115450 |
| Cassidy, Anna; Farmer, Veronica; Arpağ, Göker; Zanic, Marija (2024), "The GTP-tubulin cap is not the determinant of microtubule end stability in cells", Molecular biology of the cell, Vol.35, No.10, DOI: 10.1091/mbc.E24-07-0307 |
| Poyraz, Yağmur; Baltacı, Nisa; Hassan, Gana; Alayoubi, Oubadah; Uysal, Bengü Özuğur; Pekcan, Önder (2024), "Composite Hydrogel of Polyacrylamide/Starch/Gelatin as a Novel Amoxicillin Delivery System", Gels, Vol.10, No.10, DOI: 10.3390/gels10100625 |
| Turkmenoglu, Ipek; Kurtulus, Gamze; Sesal, Cenk; Kurkcuoglu, Ozge; Ayyildiz, Merve; Celiker, Serkan; Ozhelvaci, Fatih; Du, Xin; Liu, George Y.; Arditi, Moshe; Akten, Ebru Demet (2024), "Effective drug design screening in bacterial glycolytic enzymes via targeting alternative allosteric sites", Archives of Biochemistry and Biophysics, Vol.762, DOI: 10.1016/j.abb.2024.110190 |
| Pekcan, Onder; Arsan, Taner (2024), "FRACTAL ANALYSIS OF CARDIAC SPECTRA", Symmetry Culture and Science, Vol.35, No.2, 141-151 DOI: 10.26830/symmetry_2024_2_141 |
| Boumezber, Sarah; Yelekçi, Kemal (2023), "Screening of novel and selective inhibitors for neuronal nitric oxide synthase (nNOS) via structure-based drug design techniques", Journal of Biomolecular Structure and Dynamics, Vol.41, No.8, 3607-3629 DOI: 10.1080/07391102.2022.2054471 |
| Ozdes, Celik; Eroglu, Deniz (2023), "Transformation cost spectrum for irregularly sampled time series", European Physical Journal: Special Topics, Vol.232, No.1, 35-46 DOI: 10.1140/epjs/s11734-022-00512-x |
| Erensoy, Gizem; Ding, Kai; Zhan, Chang Guo; Çiftçi, Gamze; Yelekçi, Kemal; Duracık, Merve; Bingöl Özakpınar, Özlem; Aydemir, Esra; Yılmaz, Zübeyde Nur; Şahin, Fikrettin; Kulabaş, Necla; Tatar, Esra; Küçükgüzel, İlkay (2023), "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, Vol.1272, DOI: 10.1016/j.molstruc.2022.134154 |
| Yelekçi, Kemal; Erdem, Safiye Sağ (2023), "Computational Chemistry and Molecular Modeling of Reversible MAO Inhibitors", 1: |
| Bülbül, Bahadır; Ding, Kai; Zhan, Chang Guo; Çiftçi, Gamze; Yelekçi, Kemal; Gürboğa, Merve; Özakpınar, Özlem Bingöl; Aydemir, Esra; Baybağ, Deniz; Şahin, Fikrettin; Kulabaş, Necla; Helvacıoğlu, Sinem; Charehsaz, Mohammad; Tatar, Esra; Özbey, Süheyla; Küçükgüzel, İlkay (2023), "Novel 1,2,4-triazoles derived from Ibuprofen: synthesis and in vitro evaluation of their mPGES-1 inhibitory and antiproliferative activity", Molecular Diversity, Vol.27, No.5, 2185-2215 DOI: 10.1007/s11030-022-10551-0 |
| Osma, Büşra; Pekcan, Önder; Akın Evingür, Gülşen (2023), "Kinetics models for polyacrylamide-graphene oxide composites as antifoulant", Polymer Engineering and Science, Vol.63, No.1, 238-248 DOI: 10.1002/pen.26201 |
| Bathaei, Mohammad Javad; Singh, Rahul; Mirzajani, Hadi; Istif, Emin; Akhtar, Muhammad Junaid; Abbasiasl, Taher; Beker, Levent (2023), "Photolithography-Based Microfabrication of Biodegradable Flexible and Stretchable Sensors", Advanced Materials, Vol.35, No.6, DOI: 10.1002/adma.202207081 |
| Ünver, Batuhan; Pekcan, Önder; Akın Evingür, Gülşen (2023), "Optical and mechanical properties of PNIPAm-MWCNTs and PNIPAm-GO composites", Journal of Applied Polymer Science, Vol.140, No.9, DOI: 10.1002/app.53539 |
| Tülek, Ahmet; Günay, Elif; Servili, Burak; Essiz, Sebnem; Binay, Barış; Yildirim, Deniz (2023), "Sustainable production of formic acid from CO2 by a novel immobilized mutant formate dehydrogenase", Separation and Purification Technology, Vol.309, DOI: 10.1016/j.seppur.2022.123090 |
| Tsallis, Constantino; Lima, Henrique Santos; Tirnakli, Ugur; Eroglu, Deniz (2023), "First-principle validation of Fourier's law in d=1,2,3 classical systems", Physica D: Nonlinear Phenomena, Vol.446, DOI: 10.1016/j.physd.2023.133681 |
| Topal, Irem; Eroglu, Deniz (2023), "Reconstructing Network Dynamics of Coupled Discrete Chaotic Units from Data", Physical Review Letters, Vol.130, No.11, DOI: 10.1103/PhysRevLett.130.117401 |
| Kalaycıoğlu, Zeynep; Özuğur Uysal, Bengü; Pekcan, Önder; Erim, F. Bedia (2023), "Efficient Photocatalytic Degradation of Methylene Blue Dye from Aqueous Solution with Cerium Oxide Nanoparticles and Graphene Oxide-Doped Polyacrylamide", ACS Omega, Vol.8, No.14, 13004-13015 DOI: 10.1021/acsomega.3c00198 |
| Istif, Emin; Mirzajani, Hadi; Dağ, Çağdaş; Mirlou, Fariborz; Ozuaciksoz, Elif Yaren; Cakır, Cengiz; Koydemir, Hatice Ceylan; Yilgor, Iskender; Yilgor, Emel; Beker, Levent (2023), "Miniaturized wireless sensor enables real-time monitoring of food spoilage", Nature Food, Vol.4, No.5, 427-436 DOI: 10.1038/s43016-023-00750-9 |
| Istif, Emin; Beker, Levent (2023), "A low-cost wireless miniaturized device for food spoilage monitoring", Nature Food, DOI: 10.1038/s43016-023-00752-7 |
| Ali, Mohsin; Bathaei, Mohammad Javad; Istif, Emin; Karimi, Seyed Nasir Hosseini; Beker, Levent (2023), "Biodegradable Piezoelectric Polymers: Recent Advancements in Materials and Applications", Advanced Healthcare Materials, Vol.12, No.23, DOI: 10.1002/adhm.202300318 |
| Shirzad, Mohammad Musa; Kulabaş, Necla; Erdoğan, Ömer; Çevik, Özge; Dere, Damla; Yelekçi, Kemal; Danış, Özkan; Küçükgüzel, İlkay (2023), "Novel azole-urea hybrids as VEGFR-2 inhibitors: Synthesis, in vitro antiproliferative evaluation and in silico studies", Journal of Molecular Structure, Vol.1294, DOI: 10.1016/j.molstruc.2023.136448 |
| Argunsah, Ali Özgür; Israely, Inbal (2023), "Homosynaptic plasticity induction causes heterosynaptic changes at the unstimulated neighbors in an induction pattern and location-specific manner", Frontiers in Cellular Neuroscience, Vol.17, DOI: 10.3389/fncel.2023.1253446 |
| Bilget Guven, Ebru; Durmaz Sahin, Irem; Altiparmak, Duygu; Servili, Burak; Essiz, Sebnem; Cetin-Atalay, Rengul; Tuncbilek, Meral (2023), "Newly synthesized 6-substituted piperazine/phenyl-9-cyclopentyl containing purine nucleobase analogs act as potent anticancer agents and induce apoptosis via inhibiting Src in hepatocellular carcinoma cells", RSC Medicinal Chemistry, Vol.14, No.12, 2658-2676 DOI: 10.1039/d3md00440f |
| Tareq, Shahad; Kirkil, Gokhan; Özuğur Uysal, Bengü (2023), "Superior Conductivity of Transparent ZnO/MoS2 Composite Films for Optoelectronic and Solar Cell Applications", Gels, Vol.9, No.11, DOI: 10.3390/gels9110906 |
| Rinch, Wardah Afzal; Sogunmez, Nuray; Altaf, Aiman; Alsan, Huseyin Fuat; Arsan, Taner (2023), "Deciphering the Cluster-Specific Marker Genes via Integration of Single Cell RNA Sequencing Datasets", 2023 Innovations in Intelligent Systems and Applications Conference, ASYU 2023, DOI: 10.1109/ASYU58738.2023.10296679 |
| Beytür, Sercan; Essiz, Sebnem; Özuğur Uysal, Bengü (2023), "Investigation of Structural and Antibacterial Properties of WS2-Doped ZnO Nanoparticles", ACS Omega, DOI: 10.1021/acsomega.3c09041 |
| Düzkan, Berke; Uysal, Bengü Özuğur; Pekcan, Önder (2022), "Surfactant-free one-step fabrication of gelatin/PAAm/MWCNT composites for biomedical applications", Polymer Bulletin, Vol.79, No.3, 1597-1614 DOI: 10.1007/s00289-021-03574-4 |
| Albayati, Safana; Uba, Abdullahi Ibrahim; Yelekçi, Kemal (2022), "Potential inhibitors of methionine aminopeptidase type II identified via structure-based pharmacophore modeling", Molecular Diversity, Vol.26, No.2, 1005-1016 DOI: 10.1007/s11030-021-10221-7 |
| Metin, Reyhan; Akten, Ebru Demet (2022), "Drug repositioning to propose alternative modulators for glucocorticoid receptor through structure-based virtual screening", Journal of Biomolecular Structure and Dynamics, Vol.40, No.21, 11418-11433 DOI: 10.1080/07391102.2021.1960608 |
| Celebi, Metehan; Inan, Tugce; Kurkcuoglu, Ozge; Akten, Ebru Demet (2022), "Potential allosteric sites captured in glycolytic enzymes via residue-based network models: Phosphofructokinase, glyceraldehyde-3-phosphate dehydrogenase and pyruvate kinase", Biophysical Chemistry, Vol.280, DOI: 10.1016/j.bpc.2021.106701 |
| Özuğur Uysal, Bengü; Akın Evingür, Gülşen; Pekcan, Önder (2022), "Polyacrylamide mediated polyvinyl pyrrolidone composites incorporated with aligned molybdenum disulfide", Journal of Applied Polymer Science, Vol.139, No.18, DOI: 10.1002/app.52061 |
| Ata Ouda Al-Masri, Rahaf; Audu-Bida, Hajara; Eşsiz, Şebnem (2022), "Modelling of C-terminal tail of human STING and its interaction with tank-binding kinase 1", Turkish Journal of Biology, Vol.46, No.1, 69-81 DOI: 10.3906/biy-2108-90 |
| Braun, Tobias; Fernandez, Cinthya N.; Eroglu, Deniz; Hartland, Adam; Breitenbach, Sebastian F.M.; Marwan, Norbert (2022), "Sampling rate-corrected analysis of irregularly sampled time series", Physical Review E, Vol.105, No.2, DOI: 10.1103/PhysRevE.105.024206 |
| Birgül, Kaan; Uba, Abdullah Ibrahim; Çuhadar, Ozan; Sevinç, Sevgi Koçyiğit; Tiryaki, Selen; Tiber, Pınar Mega; Orun, Oya; Telci, Dilek; Yılmaz, Özgür; Yelekçi, Kemal; Güniz Küçükgüzel, (2022), "Synthesis and molecular modeling of MetAP2 of thiosemicarbazides, 1,2,4-triazoles, thioethers derived from (S)-Naproxen as possible breast cancer agents", Journal of Molecular Structure, Vol.1259, DOI: 10.1016/j.molstruc.2022.132739 |
| Bakrani, Sajjad; Lamb, Jeroen S.W.; Turaev, Dmitry (2022), "Invariant manifolds of homoclinic orbits and the dynamical consequences of a super-homoclinic: A case study in R4 with Z2-symmetry and integral of motion", Journal of Differential Equations, Vol.327, 1-63 DOI: 10.1016/j.jde.2022.04.002 |
| Celebi, Metehan; Akten, Ebru Demet (2022), "Altered Dynamics of S. aureus Phosphofructokinase via Bond Restraints at Two Distinct Allosteric Binding Sites", Journal of Molecular Biology, Vol.434, No.17, DOI: 10.1016/j.jmb.2022.167646 |
| Polat, Emre Ozan; Cetin, M. Mustafa; Tabak, Ahmet Fatih; Güven, Ebru Bilget; Uysal, Bengü Özuğur; Arsan, Taner; Kabbani, Anas; Hamed, Houmeme; Gül, Sümeyye Berfin (2022), "Transducer Technologies for Biosensors and Their Wearable Applications", Biosensors, Vol.12, No.6, DOI: 10.3390/bios12060385 |
| Babandi, Abba; Anosike, Chioma A.; Ezeanyika, Lawrence U.S.; Yelekçi, Kemal; Uba, Abdullahi Ibrahim (2022), "Molecular modeling studies of some phytoligands from Ficus sycomorus fraction as potential inhibitors of cytochrome CYP6P3 enzyme of Anopheles coluzzii", Jordan Journal of Pharmaceutical Sciences, Vol.15, No.2, 258-275 DOI: 10.35516/jjps.v15i2.324 |
| Duan, Chao; Nishikawa, Takashi; Eroglu, Deniz; Motter, Adilson E. (2022), "Network structural origin of instabilities in large complex systems", Science Advances, Vol.8, No.28, DOI: 10.1126/sciadv.abm8310 |
| Nijholt, Eddie; Ocampo-Espindola, Jorge Luis; Eroglu, Deniz; Kiss, István Z.; Pereira, Tiago (2022), "Emergent hypernetworks in weakly coupled oscillators", Nature Communications, Vol.13, No.1, DOI: 10.1038/s41467-022-32282-4 |
| Cetin, M. Mustafa; Peng, Wenjing; Unruh, Daniel; Mayer, Michael F.; Mechref, Yehia; Yelekci, Kemal (2022), "Design, synthesis, molecular modeling, and bioactivity evaluation of 1,10-phenanthroline and prodigiosin (Ps) derivatives and their Copper(I) complexes against mTOR and HDAC enzymes as highly potent and effective new anticancer therapeutic drugs", Frontiers in Pharmacology, Vol.13, DOI: 10.3389/fphar.2022.980479 |
| Zhu, Dingsheng; Sun, Bin; Tong, Lu; Wu, Yating; Cetin, M. Mustafa; Li, Hao (2022), "A π-Electron Rich Cage via the Friedel-Crafts Reaction", Organic Letters, Vol.24, No.49, 8980-8985 DOI: 10.1021/acs.orglett.2c03560 |
| Durmaz, Sümeyye; Yildiz, Ekrem; Uysal, Bengü Özuğur; Pekcan, Önder (2022), "3D self-assemble formation of molybdenum disulfide (MoS2)-doped polyacrylamide (PAAm) composite hydrogels", Turkish Journal of Physics, Vol.46, No.6, 239-251 DOI: 10.55730/1300-0101.2730 |
| Evingür, Gülşen Akın; Sağlam, Nafia Alara; Çimen, Büşra; Uysal, Bengü Özuğur; Pekcan, Önder (2021), "The WS2 dependence on the elasticity and optical band gap energies of swollen PAAm composites", Journal of Composite Materials, Vol.55, No.1, 71-76 DOI: 10.1177/0021998320944210 |
| Elmezayen, Ammar D.; Yelekçi, Kemal (2021), "Homology modeling and in silico design of novel and potential dual-acting inhibitors of human histone deacetylases HDAC5 and HDAC9 isozymes", Journal of Biomolecular Structure and Dynamics, Vol.39, No.17, 6396-6414 DOI: 10.1080/07391102.2020.1798812 |
| Arda, Ertan; Kara, Selim; Pekcan, Önder; Akın Evingür, Gülşen (2021), "Evaluation of the fractal dimension of polyacrylamide during gelation and swelling", Materials Today Communications, Vol.26, DOI: 10.1016/j.mtcomm.2020.101980 |
| Eroglu, Deniz (2021), "Network dynamics reconstruction from data", Turkish Journal of Physics, Vol.44, No.4, 394-403 DOI: 10.3906/fiz-2004-7 |
| Salgin-Goksen, Umut; Telli, Gokcen; Erikci, Acelya; Dedecengiz, Ezgi; Tel, Banu Cahide; Kaynak, F. Betul; Yelekci, Kemal; Ucar, Gulberk; Gokhan-Kelekci, Nesrin (2021), "New 2-Pyrazoline and Hydrazone Derivatives as Potent and Selective Monoamine Oxidase A Inhibitors", Journal of Medicinal Chemistry, Vol.64, No.4, 1989-2009 DOI: 10.1021/acs.jmedchem.0c01504 |
| Hu, Guang; Doruker, Pemra; Li, Hongchun; Demet Akten, Ebru (2021), "Editorial: Understanding Protein Dynamics, Binding and Allostery for Drug Design", Frontiers in Molecular Biosciences, Vol.8, DOI: 10.3389/fmolb.2021.681364 |
| Banerjee, Abhirup; Goswami, Bedartha; Hirata, Yoshito; Eroglu, Deniz; Merz, Bruno; Kurths, Jurgen; Marwan, Norbert (2021), "Recurrence analysis of extreme event-like data", Nonlinear Processes in Geophysics, Vol.28, No.2, 213-229 DOI: 10.5194/npg-28-213-2021 |
| Essiz, Sebnem; Gencel, Melis; Aktolun, Muhammed; Demir, Ayhan; Carpenter, Timothy S.; Servili, Burak (2021), "Correlated conformational dynamics of the human GluN1-GluN2A type N-methyl-D-aspartate (NMDA) receptor", Journal of Molecular Modeling, Vol.27, No.6, DOI: 10.1007/s00894-021-04755-8 |
| Elmezayen, Ammar D.; Kemal, Yelekçi (2021), "Structure-based virtual screening for novel potential selective inhibitors of class IIa histone deacetylases for cancer treatment", Computational Biology and Chemistry, Vol.92, DOI: 10.1016/j.compbiolchem.2021.107491 |
| Elmezayen, Ammar D.; Al-Obaidi, Anas; Yelekçi, Kemal (2021), "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", Journal of Molecular Graphics and Modelling, Vol.106, DOI: 10.1016/j.jmgm.2021.107937 |
| Al-Obaidi, Anas; Elmezayen, Ammar D.; Yelekçi, Kemal (2021), "Homology modeling of human GABA-AT and devise some novel and potent inhibitors via computer-aided drug design techniques", Journal of Biomolecular Structure and Dynamics, Vol.39, No.11, 4100-4110 DOI: 10.1080/07391102.2020.1774417 |
| Nayır, Şeyma; Kıvrak, Sena; Kara, İrem; Uysal, Bengü Özuğur; Pekcan, Önder (2021), "Tungsten disulfide (WS2) doped polyacrylamide (PAAm) composites: Gelation and optical studies", Optik, Vol.245, DOI: 10.1016/j.ijleo.2021.167673 |
| Aksoy, Halil; Şekerler, Turgut; Mert, Naz Mina (2021), "In silico investigation of wound healing potential of some compounds in tubers of asphodelus species with gsk3-β protein", Journal of Research in Pharmacy, Vol.25, No.5, 747-754 DOI: 10.29228/jrp.65 |
| Marwan, Norbert; Donges, Jonathan F.; Donner, Reik V.; Eroglu, Deniz (2021), "Nonlinear time series analysis of palaeoclimate proxy records", Quaternary Science Reviews, Vol.274, DOI: 10.1016/j.quascirev.2021.107245 |
| Uğur, Şaziye; Pekcan, Önder (2021), "Application of fluorescence technique for understanding film formation from polymer latexes and composites", 1: 1 |
| Uysal, Bengü Özuǧur; Arier, Ümit Özlem Akkaya; Pekcan, Önder (2020), "TAILORING the ELECTRICAL and OPTICAL PROPERTIES of CARBON NANOTUBE REINFORCED TRANSPARENT TiO 2 COMPOSITES by VARYING NANOTUBE CONCENTRATIONS", Surface Review and Letters, Vol.27, No.2, DOI: 10.1142/S0218625X19501038 |
| Uba, Abdullahi Ibrahim; Weako, Jackson; Keskin, Özlem; Gürsoy, Attila; Yelekçi, Kemal (2020), "Examining the stability of binding modes of the co-crystallized inhibitors of human HDAC8 by molecular dynamics simulation", Journal of Biomolecular Structure and Dynamics, Vol.38, No.6, 1751-1760 DOI: 10.1080/07391102.2019.1615989 |
| Sunay, M. Selin; Uğur, Şaziye; Pekcan, Önder (2020), "Fluorescence and photon transmission techniques for studying film formation from PS/GO nanocomposites", Polymer Bulletin, Vol.77, No.6, 3061-3077 DOI: 10.1007/s00289-019-02897-7 |
| Uba, Abdullahi Ibrahim; Yelekçi, Kemal (2020), "Crystallographic structure versus homology model: a case study of molecular dynamics simulation of human and zebrafish histone deacetylase 10", Journal of Biomolecular Structure and Dynamics, Vol.38, No.15, 4397-4406 DOI: 10.1080/07391102.2019.1691658 |
| Evingür, Gülşen Akın; Pekcan, Önder (2020), "Fractal dimension and phase transition of graphene oxide (GO) doped polyacrylamide", Polymer Testing, Vol.84, DOI: 10.1016/j.polymertesting.2020.106386 |
| Sari, Suat; Kart, Didem; Öztürk, Naile; Kaynak, F. Betül; Gencel, Melis; Taşkor, Gülce; Karakurt, Arzu; Saraç, Selma; Eşsiz, Şebnem; Dalkara, Sevim (2020), "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](S0223523419306105)(10.1016/j.ejmech.2019.06.083)", European Journal of Medicinal Chemistry, Vol.190, DOI: 10.1016/j.ejmech.2020.112130 |
| Kucukdumlu, Asligul; Tuncbilek, Meral; Guven, Ebru Bilget; Atalay, Rengul Cetin (2020), "Design, synthesis and in vitro cytotoxic activity of new 6,9-disubstituted purine analogues", Acta Chimica Slovenica, Vol.67, No.1, 70-82 DOI: 10.17344/acsi.2019.5196 |
| Weako, Jackson; Uba, Abdullahi Ibrahim; Keskin, Özlem; Gürsoy, Attila; Yelekçi, Kemal (2020), "Identification of potential inhibitors of human methionine aminopeptidase (type II) for cancer therapy: Structure-based virtual screening, ADMET prediction and molecular dynamics studies", Computational Biology and Chemistry, Vol.86, DOI: 10.1016/j.compbiolchem.2020.107244 |
| Elmezayen, Ammar D.; Al-Obaidi, Anas; Şahin, Alp Tegin; Yelekçi, Kemal (2020), "Drug repurposing for coronavirus (COVID-19): in silico screening of known drugs against coronavirus 3CL hydrolase and protease enzymes", Journal of Biomolecular Structure and Dynamics, 1-13 DOI: 10.1080/07391102.2020.1758791 |
| Ayyildiz, Merve; Celiker, Serkan; Ozhelvaci, Fatih; Akten, E. Demet (2020), "Identification of Alternative Allosteric Sites in Glycolytic Enzymes for Potential Use as Species-Specific Drug Targets", Frontiers in Molecular Biosciences, Vol.7, DOI: 10.3389/fmolb.2020.00088 |
| Sogunmez, Nuray; Akten, Ebru Demet (2020), "Distinctive communication networks in inactive states of β2-adrenergic receptor: Mutual information and entropy transfer analysis", Proteins: Structure, Function and Bioinformatics, Vol.88, No.11, 1458-1471 DOI: 10.1002/prot.25965 |
| Erensoy, Gizem; Ding, Kai; Zhan, Chang Guo; Elmezayen, Ammar; Yelekçi, Kemal; Duracik, Merve; Bingöl Özakpinar, Özlem; Küçükgüzel, İlkay (2020), "Synthesis, in silico studies and cytotoxicity evaluation of novel 1,3,4-oxadiazole derivatives designed as potential mPGES-1 inhibitors", Journal of Research in Pharmacy, Vol.24, No.4, 436-451 DOI: 10.35333/jrp.2020.187 |
| Eroglu, Deniz; Tanzi, Matteo; Van Strien, Sebastian; Pereira, Tiago (2020), "Revealing Dynamics, Communities, and Criticality from Data", Physical Review X, Vol.10, No.2, DOI: 10.1103/PhysRevX.10.021047 |
| Åžahin, H. Bahar; Åžahin, H. Bahar; Sayin, Sercan; Sayin, Sercan; Holder, Maxine; BuÄra, KuyaÅ; BuÄra, KuyaÅ; Elikid, Arzu C.; Elikid, Arzu C. (2020), "Salt inducible kinases as novel Notch interactors in the developing Drosophila retina", PLoS ONE, Vol.15, No.6, DOI: 10.1371/journal.pone.0234744 |
| Yılmaz, Özgür; Bayer, Burak; Bekçi, Hatice; Uba, Abdullahi I.; Cumaoğlu, Ahmet; Yelekçi, Kemal; Güniz Küçükgüzel, (2020), "Synthesis, anticancer activity on prostate cancer cell lines and molecular modeling studies of flurbiprofen-thioether derivatives as potential target of metap (Type ii)", Medicinal Chemistry, Vol.16, No.6, 735-749 DOI: 10.2174/1573406415666190613162322 |
| Birgül, Kaan; Yıldırım, Yeliz; Karasulu, H. Yeşim; Karasulu, Ercüment; Uba, Abdullah Ibrahim; Yelekçi, Kemal; Bekçi, Hatice; Cumaoğlu, Ahmet; Kabasakal, Levent; Yılmaz, Özgür; Küçükgüzel, Güniz (2020), "Synthesis, molecular modeling, in vivo study and anticancer activity against prostate cancer of (+) (S)-naproxen derivatives", European Journal of Medicinal Chemistry, Vol.208, DOI: 10.1016/j.ejmech.2020.112841 |
| Prasad, Sushma; Marwan, Norbert; Eroglu, Deniz; Goswami, Bedartha; Mishra, Praveen K.; Gaye, Birgit; Anoop, A.; Basavaiah, N.; Stebich, Martina; Jehangir, Arshid (2020), "Holocene climate forcings and lacustrine regime shifts in the Indian summer monsoon realm", Earth Surface Processes and Landforms, Vol.45, No.15, 3842-3853 DOI: 10.1002/esp.5004 |
| Peron, Thomas; Eroglu, Deniz; Rodrigues, Francisco A.; Moreno, Yamir (2020), "Collective dynamics of random Janus oscillator networks", Physical Review Research, Vol.2, No.1, DOI: 10.1103/PhysRevResearch.2.013255 |
| Atilgan, Ahmet; Cetin, M. Mustafa; Yu, Jierui; Beldjoudi, Yassine; Liu, Jian; Stern, Charlotte L.; Cetin, Furkan M.; Islamoglu, Timur; Farha, Omar K.; Deria, Pravas; Stoddart, J. Fraser; Hupp, Joseph T. (2020), "Post-synthetically elaborated BODIPY-based porous organic polymers (POPs) for the photochemical detoxification of a sulfur mustard simulant", Journal of the American Chemical Society, Vol.142, No.43, 18554-18564 DOI: 10.1021/jacs.0c07784 |
| Djikic, Teodora; Martí, Yasmina; Spyrakis, Francesca; Lau, Thorsten; Benedetti, Paolo; Davey, Gavin; Schloss, Patrick; Yelekci, Kemal (2019), "Human dopamine transporter: the first implementation of a combined in silico/in vitro approach revealing the substrate and inhibitor specificities", Journal of Biomolecular Structure and Dynamics, Vol.37, No.2, 291-306 DOI: 10.1080/07391102.2018.1426044 |
| Mergen, Ömer Bahadır; Arda, Ertan; Kara, Selim; Pekcan, Önder (2019), "Effects of GNP addition on optical properties and band gap energies of PMMA films", Polymer Composites, Vol.40, No.5, 1862-1869 DOI: 10.1002/pc.24948 |
| Goksen, Umut Salgin; Sarigul, Sevgi; Bultinck, Patrick; Herrebout, Wouter; Dogan, Ilknur; Yelekci, Kemal; Ucar, Gulberk; Gokhan Kelekci, Nesrin (2019), "Absolute configuration and biological profile of pyrazoline enantiomers as MAO inhibitory activity", Chirality, Vol.31, No.1, 21-33 DOI: 10.1002/chir.23027 |
| Samorlu, Augustine S.; Yelekçi, Kemal; Ibrahim Uba, Abdullahi (2019), "The design of potent HIV-1 integrase inhibitors by a combined approach of structure-based virtual screening and molecular dynamics simulation", Journal of Biomolecular Structure and Dynamics, Vol.37, No.17, 4644-4650 DOI: 10.1080/07391102.2018.1557559 |
| Ibrahim Uba, Abdullahi; Yelekçi, Kemal (2019), "Homology modeling of human histone deacetylase 10 and design of potential selective inhibitors", Journal of Biomolecular Structure and Dynamics, Vol.37, No.14, 3627-3636 DOI: 10.1080/07391102.2018.1521747 |
| Dilcan, Gonca; Doruker, Pemra; Akten, Ebru Demet (2019), "Ligand-binding affinity of alternative conformers of human β2-adrenergic receptor in the presence of intracellular loop 3 (ICL3) and their potential use in virtual screening studies", Chemical Biology and Drug Design, Vol.93, No.5, 883-899 DOI: 10.1111/cbdd.13478 |
| Nicolaou, Zachary G.; Eroglu, Deniz; Motter, Adilson E. (2019), "Multifaceted Dynamics of Janus Oscillator Networks", Physical Review X, Vol.9, No.1, DOI: 10.1103/PhysRevX.9.011017 |
| Uysal, Bengü Özuğur; Tepehan, Fatma Z. (2019), "Determination of growth kinetics and size dependent structural, morphological, optical characteristics of sol-gel derived silica nanoparticles in silica matrix", Materials Science- Poland, Vol.37, No.1, 16-24 DOI: 10.2478/msp-2019-0010 |
| Bilge, Ayse Humeyra; Ogrenci, Arif Selcuk; Pekcan, Onder (2019), "Mathematical models for phase transitions in biogels", Modern Physics Letters B, Vol.33, No.9, DOI: 10.1142/S0217984919501112 |
| Sogunmez, Nuray; Akten, E. Demet (2019), "Intrinsic Dynamics and Causality in Correlated Motions Unraveled in Two Distinct Inactive States of Human β 2 -Adrenergic Receptor", Journal of Physical Chemistry B, Vol.123, No.17, 3630-3642 DOI: 10.1021/acs.jpcb.9b01202 |
| Han, Muhammed; Bekçi, Hatice; Uba, Abdullahi I.; Yıldırım, Yeliz; Karasulu, Ercüment; Cumaoğlu, Ahmet; Karasulu, Hatice Y.; Yelekçi, Kemal; Yılmaz, Özgür; Küçükgüzel, Güniz (2019), "Synthesis, molecular modeling, in vivo study, and anticancer activity of 1,2,4-triazole containing hydrazide–hydrazones derived from (S)-naproxen", Archiv der Pharmazie, Vol.352, No.6, DOI: 10.1002/ardp.201800365 |
| Coşkun, Göknil Pelin; Djikic, Teodora; Kalaycı, Sadık; Yelekçi, Kemal; Şahin, Fikrettin; Güniz Küçükgüzel, (2019), "Synthesis, molecular modelling and antibacterial activity against helicobacter pylori of novel diflunisal derivatives as urease enzyme inhibitors", Letters in Drug Design and Discovery, Vol.16, No.4, 392-400 DOI: 10.2174/1570180815666180627130208 |
| Burmaoglu, Serdar; Ozcan, S.; Balcioglu, S.; Gencel, M.; Noma, Samir Abbas Ali; Essiz, Sebnem; Ates, Burhan; Algul, Oztekin (2019), "Synthesis, biological evaluation and molecular docking studies of bis-chalcone derivatives as xanthine oxidase inhibitors and anticancer agents", Bioorganic Chemistry, Vol.91, DOI: 10.1016/j.bioorg.2019.103149 |
| Sari, Suat; Kart, Didem; Sabuncuoğlu, Suna; Doğan, İnci Selin; Özdemir, Zeynep; Bozbey, İrem; Gencel, Melis; Eşsiz, Şebnem; Reynisson, Jóhannes; Karakurt, Arzu; Saraç, Selma; Dalkara, Sevim (2019), "Antifungal screening and in silico mechanistic studies of an in-house azole library", Chemical Biology and Drug Design, Vol.94, No.5, 1944-1955 DOI: 10.1111/cbdd.13587 |
| Osma, Büsra; Evingür, Gülsen Akin; Pekcan, Önder (2019), "Effect of temperature and graphene oxide on the swelling of PAAm-GO composite gels", Proceedings of the World Congress on New Technologies, DOI: 10.11159/icnfa19.146 |
| Evingür, Gülşen Akin; Pekcan, Önder (2019), "Graphene oxide-polyacrylamide composites: Optical and mechanical characterizations", 1: 1 |