2024
43- Hasturk B., Avsar T., Ozbas S., Karademir Yilmaz B., Eren F. (2024) N-Acetylgalactosamine-Conjugated Antisense Oligonucleotides Designed as Inhibitors of ABCB1: Coping with Multidrug Resistance in Hepatocellular Carcinoma. Mol Biol 58, 1280–1292. https://doi.org/10.1134/S0026893324060050
42- Aydın S., Ergün Y., Ghazy S., Çelebi A., Kilic T., Avsar T., Durdagi S. (2024). Synthesis of Tryptamine-Thiazolidin-4-one Derivatives and the Combined In Silico and In Vitro Evaluation of their Biological Activity and Cytotoxicity. ACS Omega (9), 44, 44262–44281. https://doi.org/10.1021/acsomega.4c04456
41- Abuelrub A., Paker B., Kilic T., Avsar T. (2024). Claudin and transmembrane receptor protein gene expressions are reversely correlated in peritumoral brain edema. Cancer Medicine 13:e70111. https://doi.org/10.1002/cam4.70111
40- Kekeçmuhammed H., bTapera M., Şahin K., Öztürk Sever B., Anber A.M., Bora R.E., Avşar T., Kılıç T., Günger E., SarıpınarE., Coker-Gurkan A., Durdağı S. (2024). The Suppressive Effect of Novel Hydrazones-Tethered Imidazoles in HCT-116and HT-29 Colorectal Cancer Cells: Synthesis, Biological Activity and Molecular Modeling Studies. Chemistry Select 9, e202303108. https://doi.org/10.1002/slct.202303108
39-Sari S., Ünver S., Avşar T., Özçelik Ş., Kılıç T., Kahveci, M. U. (2024). Fluorescent poly(β-amino ester)s containing aza-BODIPYs as theranostic agents for bioimaging and photodynamic therapy. Polym. Chem., (15), 2177-2190. https://doi.org/10.1039/D4PY00318G
2023
38- Youngblood, M. W., Erson-Omay, Z., Li, C., Najem, H., Coșkun, S., Tyrtova, E., Montejo, J. D., Miyagishima, D. F., Barak, T., Nishimura, S., Harmancı, A. S., Clark, V. E., Duran, D., Huttner, A., Avşar, T., Bayri, Y., Schramm, J., Boetto, J., Peyre, M., Riche, M., … Günel, M. (2023). Super-enhancer hijacking drives ectopic expression of hedgehog pathway ligands in meningiomas. Nature communications, 14(1), 6279. https://doi.org/10.1038/s41467-023-41926-y
37- Degirmenci, Z., Unver, S., Kilic, T., & Avsar, T. (2023). Silencing of the MEG3 gene promoted anti-cancer activity and drug sensitivity in glioma. Journal of cellular and molecular medicine, 27(17), 2603–2613. https://doi.org/10.1111/jcmm.17883
36- Cosan, F., Demirel, O. U., Yalcin, D., Sonkaya, M. M., Uluisik, I. E., Cecen, O., Furuncuoglu, Y., Celikmen, D. M., Kara, O., Ceylan, E., & Avsar, T. (2023). Comparison of anti-spike IgG, anti-spike IgA levels and neutralizing antibody activity induced by CoronaVac and BNT162b2 vaccines in patients with inflammatory rheumatic diseases receiving immunosuppressive therapy. BMC rheumatology, 7(1), 20. https://doi.org/10.1186/s41927-023-00342-x
35- Everest, E., Uygunoglu, U., Tutuncu, M., Bulbul, A., Onat, U. I., Unal, M., Avsar, T., Saip, S., Bilge, U., Turanli, E. T., & Siva, A. (2023). Prospective outcome analysis of multiple sclerosis cases reveals candidate prognostic cerebrospinal fluid markers. PloS one, 18(6), e0287463. https://doi.org/10.1371/journal.pone.0287463
34-Erol, E., Orhan, M. D., Avsar, T., Akdemir, A., Okudan, E. S., Alim Toraman, G. O., & Topcu, G. (2022). Anti-SARS-CoV-2 and cytotoxic activity of two marine alkaloids from green alga Caulerpa cylindracea Sonder in the Dardanelles. RSC advances, 12(46), 29983–29990. https://doi.org/10.1039/d2ra03358e
33-Avsar, T., Kose, T. B., Oksal, M. D., Turan, G., & Kilic, T. (2022). IDH1 mutation activates mTOR signaling pathway, promotes cell proliferation and invasion in glioma cells. Molecular biology reports, 49(10), 9241–9249. https://doi.org/10.1007/s11033-022-07750-1
32-Durdagi, S., Orhan, M. D., Aksoydan, B., Calis, S., Dogan, B., Sahin, K., Shahraki, A., Iyison, N. B., & Avsar, T. (2022). Screening of Clinically Approved and Investigation Drugs as Potential Inhibitors of SARS-CoV-2: A Combined in silico and in vitro Study. Molecular informatics, 41(2), e2100062. https://doi.org/10.1002/minf.202100062
31-Tatarli, N., Ceylan, D., Oksal, M. D., Avsar, T., & Kilic, T. (2022). Antiangiogenic Molecules Suppressed Meningioma-Induced Neovascularization: A Corneal Angiogenesis Study. Turkish neurosurgery, 32(5), 786–792. https://doi.org/10.5137/1019-5149.JTN.34777-21.4
30-Cetin, Y., Aydinlik, S., Gungor, A., Kan, T., Avsar, T., & Durdagi, S. (2022). Review on In Silico Methods, High-throughput Screening Techniques, and Cell Culture Based In Vitro Assays for SARS-CoV-2. Current medicinal chemistry, 29(38), 5925–5948. https://doi.org/10.2174/0929867329666220627121416
29-Dogan, K., Erol, E., Didem Orhan, M., Degirmenci, Z., Kan, T., Gungor, A., Yasa, B., Avsar, T., Cetin, Y., Durdagi, S., & Guzel, M. (2022). Instant determination of the artemisinin from various Artemisia annua L. extracts by LC-ESI-MS/MS and their in-silico modelling and in vitro antiviral activity studies against SARS-CoV-2. Phytochemical analysis : PCA, 33(2), 303–319. https://doi.org/10.1002/pca.3088
28-Durdagi, S., Avsar, T., Orhan, M. D., Serhatli, M., Balcioglu, B. K., Ozturk, H. U., Kayabolen, A., Cetin, Y., Aydinlik, S., Bagci-Onder, T., Tekin, S., Demirci, H., Guzel, M., Akdemir, A., Calis, S., Oktay, L., Tolu, I., Butun, Y. E., Erdemoglu, E., Olkan, A., … Yumak, Y. (2022). The neutralization effect of montelukast on SARS-CoV-2 is shown by multiscale in silico simulations and combined in vitro studies. Molecular therapy : the journal of the American Society of Gene Therapy, 30(2), 963–974. https://doi.org/10.1016/j.ymthe.2021.10.014
27-Durdagi, S., Orhan, M. D., Aksoydan, B., Calis, S., Dogan, B., Sahin, K., Shahraki, A., Iyison, N. B., & Avsar, T. (2022). Screening of Clinically Approved and Investigation Drugs as Potential Inhibitors of SARS-CoV-2: A Combined in silico and in vitro Study. Molecular informatics, 41(2), e2100062. https://doi.org/10.1002/minf.202100062
2022
2021
26- Durdagi, S., Dağ, Ç., Dogan, B., Yigin, M., Avsar, T., Buyukdag, C., Erol, I., Ertem, F. B., Calis, S., Yildirim, G., Orhan, M. D., Guven, O., Aksoydan, B., Destan, E., Sahin, K., Besler, S. O., Oktay, L., Shafiei, A., Tolu, I., Ayan, E., … DeMirci, H. (2021). Near-physiological-temperature serial crystallography reveals conformations of SARS-CoV-2 main protease active site for improved drug repurposing. Structure (London, England : 1993), 29(12), 1382–1396.e6. https://doi.org/10.1016/j.str.2021.07.007
25- Avşar, T., Çelikyapi Erdem, G., Terzioğlu, G., & Tahir Turanli, E. (2021). Investigation of neuro-inflammatory parameters in a cuprizone induced mouse model of multiple sclerosis. Turkish journal of biology = Turk biyoloji dergisi, 45(5), 644–655. https://doi.org/10.3906/biy-2104-88
24- Sahin, K., Orhan, M. D., Avsar, T., & Durdagi, S. (2021). Hybrid In Silico and TR-FRET-Guided Discovery of Novel BCL-2 Inhibitors. ACS pharmacology & translational science, 4(3), 1111–1123. https://doi.org/10.1021/acsptsci.0c00210
23- Youngblood, M. W., Miyagishima, D. F., Jin, L., Gupte, T., Li, C., Duran, D., Montejo, J. D., Zhao, A., Sheth, A., Tyrtova, E., Özduman, K., Iacoangeli, F., Peyre, M., Boetto, J., Pease, M., Avşar, T., Huttner, A., Bilguvar, K., Kilic, T., Pamir, M. N., … Moliterno, J. (2021). Associations of meningioma molecular subgroup and tumor recurrence. Neuro-oncology, 23(5), 783–794. https://doi.org/10.1093/neuonc/noaa226
21- Kanan, D., Kanan, T., Dogan, B., Orhan, M. D., Avsar, T., & Durdagi, S. (2021). An Integrated in silico Approach and in vitro Study for the Discovery of Small-Molecule USP7 Inhibitors as Potential Cancer Therapies. ChemMedChem, 16(3), 555–567. https://doi.org/10.1002/cmdc.202000675
20- Avsar, T., Mohiyuddin, R., Calis, S., Yapicier, O., & Kilic, T. (2021). Association of MTHFR, MTRR and RAD54L Gene Variations with Meningioma and Correlation with Tumor's Histopathological Characteristics on Turkish Cohort. Turkish neurosurgery, 31(4), 587–593. https://doi.org/10.5137/1019-5149.JTN.33347-20.2
19- Kanan, D., Kanan, T., Dogan, B., Orhan, M. D., Avsar, T., & Durdagi, S. (2021). An Integrated in silico Approach and in vitro Study for the Discovery of Small-Molecule USP7 Inhibitors as Potential Cancer Therapies. ChemMedChem, 16(3), 555–567. https://doi.org/10.1002/cmdc.202000675
2020
18- AvŞar, T., ÇaliŞ, Ş., Yilmaz, B., Demİrcİ OtluoĞlu, G., Holyavkİn, C., & KiliÇ, T. (2020). Genome-wide identification of Chiari malformation type I associated candidate genes and chromosomal variations. Turkish journal of biology = Turk biyoloji dergisi, 44(6), 449–456. https://doi.org/10.3906/biy-2009-19
17- Aydin, G., Paksoy, M. N., Orhan, M. D., Avsar, T., Yurtsever, M., & Durdagi, S. (2020). Proposing novel MDM2 inhibitors: Combined physics-driven high-throughput virtual screening and in vitro studies. Chemical biology & drug design, 96(1), 684–700. https://doi.org/10.1111/cbdd.13694
16- Avsar, T., Sursal, A., Turan, G., Yigit, B. N., Altunsu, D., Cantasir, K., Duyu, G., Bayoumi, A. B., Yapicier, O., Acar, M., & Kilic, T. (2020). Development of a Rapid and Sensitive IDH1/2 Mutation Detection Method for Glial Tumors and a Comparative Mutation Analysis of 236 Glial Tumor Samples. Molecular diagnosis & therapy, 24(3), 327–338. https://doi.org/10.1007/s40291-020-00461-y
15- Tutumlu, G., Dogan, B., Avsar, T., Orhan, M. D., Calis, S., & Durdagi, S. (2020). Integrating Ligand and Target-Driven Based Virtual Screening Approaches With in vitro Human Cell Line Models and Time-Resolved Fluorescence Resonance Energy Transfer Assay to Identify Novel Hit Compounds Against BCL-2. Frontiers in chemistry, 8, 167. https://doi.org/10.3389/fchem.2020.00167
2019
14- Youngblood, M. W., Duran, D., Montejo, J. D., Li, C., Omay, S. B., Özduman, K., Sheth, A. H., Zhao, A. Y., Tyrtova, E., Miyagishima, D. F., Fomchenko, E. I., Hong, C. S., Clark, V. E., Riche, M., Peyre, M., Boetto, J., Sohrabi, S., Koljaka, S., Baranoski, J. F., Knight, J., … Günel, M. (2019). Correlations between genomic subgroup and clinical features in a cohort of more than 3000 meningiomas. Journal of neurosurgery, 1–10. Advance online publication. https://doi.org/10.3171/2019.8.JNS191266
2018
13- Durdagi, S., Aksoydan, B., Erol, I., Kantarcioglu, I., Ergun, Y., Bulut, G., Acar, M., Avsar, T., Liapakis, G., Karageorgos, V., Salmas, R. E., Sergi, B., Alkhatib, S., Turan, G., Yigit, B. N., Cantasir, K., Kurt, B., & Kilic, T. (2018). Integration of multi-scale molecular modeling approaches with experiments for the in silico guided design and discovery of novel hERG-Neutral antihypertensive oxazalone and imidazolone derivatives and analysis of their potential restrictive effects on cell proliferation. European journal of medicinal chemistry, 145, 273–290. https://doi.org/10.1016/j.ejmech.2017.12.021
2017
12- Ceylan, D., Tatarli, N., Avsar, T., Arslanhan, A., Bozkurt, S. U., Bağci, P., Seker, A., & Kilic, T. (2017). In vivo effect of pregnancy on angiogenesis potential of arteriovenous malformation tissue samples: an experimental study. Journal of neurosurgical sciences, 61(2), 151–156. https://doi.org/10.23736/S0390-5616.16.03085-X
2016 and before
11- Disanto, G., Adiutori, R., Dobson, R., Martinelli, V., Dalla Costa, G., Runia, T., Evdoshenko, E., Thouvenot, E., Trojano, M., Norgren, N., Teunissen, C., Kappos, L., Giovannoni, G., Kuhle, J., & International Clinically Isolated Syndrome Study Group (2016). Serum neurofilament light chain levels are increased in patients with a clinically isolated syndrome. Journal of neurology, neurosurgery, and psychiatry, 87(2), 126–129. https://doi.org/10.1136/jnnp-2014-309690
10- Atabay, K. D., Yildiz, M. T., Avsar, T., Karabay, A., & Kiliç, T. (2015). Knockdown of Pin1 leads to reduced angiogenic potential and tumorigenicity in glioblastoma cells. Oncology letters, 10(4), 2385–2389. https://doi.org/10.3892/ol.2015.3512
9- Kuhle, J., Disanto, G., Dobson, R., Adiutori, R., Bianchi, L., Topping, J., Bestwick, J. P., Meier, U. C., Marta, M., Dalla Costa, G., Runia, T., Evdoshenko, E., Lazareva, N., Thouvenot, E., Iaffaldano, P., Direnzo, V., Khademi, M., Piehl, F., Comabella, M., Sombekke, M., … Giovannoni, G. (2015). Conversion from clinically isolated syndrome to multiple sclerosis: A large multicentre study. Multiple sclerosis (Houndmills, Basingstoke, England), 21(8), 1013–1024. https://doi.org/10.1177/1352458514568827
8- Avsar, T., Durası, İ. M., Uygunoğlu, U., Tütüncü, M., Demirci, N. O., Saip, S., Sezerman, O. U., Siva, A., & Tahir Turanlı, E. (2015). CSF Proteomics Identifies Specific and Shared Pathways for Multiple Sclerosis Clinical Subtypes. PloS one, 10(5), e0122045. https://doi.org/10.1371/journal.pone.0122045
7- Villar, L. M., Casanova, B., Ouamara, N., Comabella, M., Jalili, F., Leppert, D., de Andrés, C., Izquierdo, G., Arroyo, R., Avşar, T., Lapin, S. V., Johnson, T., Montalbán, X., Fernández, O., Álvarez-Lafuente, R., Masterman, D., García-Sánchez, M. I., Coret, F., Siva, A., Evdoshenko, E., … Bar-Or, A. (2014). Immunoglobulin M oligoclonal bands: biomarker of targetable inflammation in primary progressive multiple sclerosis. Annals of neurology, 76(2), 231–240. https://doi.org/10.1002/ana.24190
6- Kılıç, K., Avsar, T., Akgün, E., Özkan, A., Toktaş, Z. O., Şeker, A., & Kılıç, T. (2013). Gamma knife radiosurgery inhibits angiogenesis of meningiomas: in vivo rat corneal assay. World neurosurgery, 80(5), 598–604. https://doi.org/10.1016/j.wneu.2013.06.021
5- Clark, V. E., Erson-Omay, E. Z., Serin, A., Yin, J., Cotney, J., Ozduman, K., Avşar, T., Li, J., Murray, P. B., Henegariu, O., Yilmaz, S., Günel, J. M., Carrión-Grant, G., Yilmaz, B., Grady, C., Tanrikulu, B., Bakircioğlu, M., Kaymakçalan, H., Caglayan, A. O., Sencar, L., … Günel, M. (2013). Genomic analysis of non-NF2 meningiomas reveals mutations in TRAF7, KLF4, AKT1, and SMO. Science (New York, N.Y.), 339(6123), 1077–1080. https://doi.org/10.1126/science.1233009
4- Karal-Yilmaz, O., Ozkan, A., Akgun, E., Kukut, M., Baysal, K., Avsar, T., & Kilic, T. (2013). Controlled release of imatinib mesylate from PLGA microspheres inhibit craniopharyngioma mediated angiogenesis. Journal of materials science. Materials in medicine, 24(1), 147–153. https://doi.org/10.1007/s10856-012-4784-2
3- Ozkan, A., Biçer, A., Avşar, T., Seker, A., Toktaş, Z. O., Bozkurt, S. U., Başak, A. N., & Kılıç, T. (2012). Temporal expression analysis of angiogenesis-related genes in brain development. Vascular cell, 4(1), 16. https://doi.org/10.1186/2045-824X-4-16
2- Yener, U., Avsar, T., Akgün, E., Şeker, A., Bayri, Y., & Kılıç, T. (2012). Assessment of antiangiogenic effect of imatinib mesylate on vestibular schwannoma tumors using in vivo corneal angiogenesis assay. Journal of neurosurgery, 117(4), 697–704. https://doi.org/10.3171/2012.6.JNS112263
1- Avsar, T., Korkmaz, D., Tütüncü, M., Demirci, N. O., Saip, S., Kamasak, M., Siva, A., & Turanli, E. T. (2012). Protein biomarkers for multiple sclerosis: semi-quantitative analysis of cerebrospinal fluid candidate protein biomarkers in different forms of multiple sclerosis. Multiple sclerosis (Houndmills, Basingstoke, England), 18(8), 1081–1091. https://doi.org/10.1177/1352458511433303