Bilimsel Yayınlar - 2020

İBG Afiliasyonlu: 60 ; * Şimdiki Adresi İBG :2

Sumeyra Cigdem Sozer, Tugce OZmen Egesoy, Merve Basol, Gulcin Cakan-Akdogan, Yasar Akdogan. A simple desolvation method for production of cationic albumin nanoparticles with improved drug loading and cell uptake. Journal of Drug Delivery Science and Technology. 2020 December; 60: 101931. doi:10.1016/j.jddst.2020.101931.

Keleş U, İşcan E, Yılmaz HE, Karakülah G, Suner A, Bal E, Taşdemir N, Cavga AD, Ekin U, Mutlu Z, Kahyaoğlu S, Serdar MA, Atabey N, Ozturk M. Differential expression of full length and N-terminally truncated FAM134B isoforms in normal physiology and cancer. American journal of physiology. Gastrointestinal and liver physiology. 2020 December; 319 (6): G733-G747. doi:10.1152/ajpgi.00094.2020.

Logotheti S, Marquardt S, Richter C, Sophie Hain R, Murr N, Takan I, Pavlopoulou A, Pützer BM. Neural Networks Recapitulation by Cancer Cells Promotes Disease Progression: A Novel Role of p73 Isoforms in Cancer-Neuronal Crosstalk. Cancers. 2020 December; 12 (3789): 1-21. doi:10.3390/cancers12123789.

Ülgen E, Karacan S, Gerlevik U, Can Ö, Bilguvar K, Oktay Y, B Akyerli C, K Yüksel Ş, E Danyeli A, Tihan T, Sezerman OU, Yakıcıer MC, Pamir MN, Özduman K. Mutations and Copy Number Alterations in IDH Wild-Type Glioblastomas Are Shaped by Different Oncogenic Mechanisms. Biomedicines. 2020 December; 8 (12). doi:10.3390/biomedicines8120574.

Gökhan Karakülah, Cihangir Yandım. Signature changes in the expressions of protein-coding genes, lncRNAs, and repeat elements in early and late cellular senescence. Turkish Journal of Biology. 2020 December; 44: 356-370. doi:10.3906/biy-2005-21.

Akman B, Hu X, Liu X, Hatipoğlu T, You H, Chan WC, Küçük C. PRDM1 decreases sensitivity of human NK cells to IL2-induced cell expansion by directly repressing CD25 (IL2RA). Journal of leukocyte biology. 2020 November. doi:10.1002/JLB.2A0520-321RR.

Micili SC, Engür D, Genc S, Ercan I, Soy S, Baysal B, Kumral A. Oxygen exposure in early life activates NLRP3 inflammasome in mouse brain. Neuroscience letters. 2020 November; 738: 135389. doi:10.1016/j.neulet.2020.135389.

Lone IN, Sengez B, Hamiche A, Dimitrov S, Alotaibi H. The Role of Histone Variants in the Epithelial-To-Mesenchymal Transition. Cells. 2020 November; 9 (11). doi:10.3390/cells9112499.

Ersöz H, Ağababaoğlu İ, Taylan İ, Çakır E, Aksun S, Güneli E. Do oral amino acid supplements facilitate the healing of rat lung injuries?. European journal of cardio-thoracic surgery : official journal of the European Association for Cardio-thoracic Surgery. 2020 November; 58 (5): 983-990. doi:10.1093/ejcts/ezaa206.

Pascarelli MT, Del Percio C, De Pandis MF, Ferri R, Lizio R, Noce G, Lopez S, Rizzo M, Soricelli A, Nobili F, Arnaldi D, Famà F, Orzi F, Buttinelli C, Giubilei F, Salvetti M, Cipollini V, Franciotti R, Onofri M, Fuhr P, Gschwandtner U, Ransmayr G, Aarsland D, Parnetti L, Farotti L, Marizzoni M, D'Antonio F, De Lena C, Güntekin B, Hanoğlu L, Yener G, Emek-Savaş DD, Triggiani AI, Paul Taylor J, McKeith I, Stocchi F, Vacca L, Hampel H, Frisoni GB, Bonanni L, Babiloni C. Abnormalities of resting-state EEG in patients with prodromal and overt dementia with Lewy bodies: Relation to clinical symptoms. Clinical neurophysiology : official journal of the International Federation of Clinical Neurophysiology. 2020 November; 131 (11): 2716-2731. doi:10.1016/j.clinph.2020.09.004.

Arslan M, Karadag D, Kalyoncu S. Conformational changes in a Vernier zone region: Implications for antibody dual specificity. Proteins. 2020 November; 88 (11): 1447-1457. doi:10.1002/prot.25964.

R. Boopathi, S. Dimitrov, A. Hamiche, C. Petosa & J. Bednar. Cryo-electron microscopy of the chromatin fiber. Current Opinion in Structural Biology. 2020 October; 64: 97-103. doi:10.1016/j.sbi.2020.06.016.

Demirci Y, Cucun G, Poyraz YK, Mohammed S, Heger G, Papatheodorou I, Ozhan G. Comparative Transcriptome Analysis of the Regenerating Zebrafish Telencephalon Unravels a Resource With Key Pathways During Two Early Stages and Activation of Wnt/β-Catenin Signaling at the Early Wound Healing Stage. Frontiers in cell and developmental biology. 2020 October; 8: 584604. doi:10.3389/fcell.2020.584604.

Ozgun G, Senturk S, Erkek-Ozhan S. Retinoic acid signaling and bladder cancer: Epigenetic deregulation, therapy and beyond. International journal of cancer. 2020 October. doi:10.1002/ijc.33374.

Eray A, Güneri PY, Yılmaz GÖ, Karakülah G, Erkek-Ozhan S. Analysis of open chromatin regions in bladder cancer links β-catenin mutations and Wnt signaling with neuronal subtype of bladder cancer. Scientific Reports. 2020 October; 10 (1): 18667. doi:10.1038/s41598-020-75688-0.

Babiloni C, Ferri R, Noce G, Lizio R, Lopez S, Soricelli A, Nobili F, Arnaldi D, Famà F, Orzi F, Buttinelli C, Giubilei F, Cipollini V, Marizzoni M, Güntekin B, Aktürk T, Hanoğlu L, Yener G, Emek-Savaş DD, Stocchi F, Vacca L, Frisoni GB, Del Percio C. Resting-state electroencephalographic delta rhythms may reflect global cortical arousal in healthy old seniors and patients with Alzheimer's disease dementia. International journal of psychophysiology : official journal of the International Organization of Psychophysiology. 2020 October; 158: 259-270. doi:10.1016/j.ijpsycho.2020.08.012.

Eskier D, Suner A, Oktay Y, Karakülah G. Mutations of SARS-CoV-2 nsp14 exhibit strong association with increased genome-wide mutation load. PeerJ. 2020 October; 8: e10181. doi:10.7717/peerj.10181.

Ozkan H, Tuzun F, Taheri S, Korhan P, Akokay P, Yılmaz O, Duman N, Özer E, Tufan E, Kumral A, Özkul Y. Epigenetic Programming Through Breast Milk and Its Impact on Milk-Siblings Mating. Frontiers in genetics. 2020 October; 11: 569232. doi:10.3389/fgene.2020.569232.

Targen S, Kaya T, Avci ME, Gunes D, Keskus AG, Konu O. ZenoFishDb v1.1: A Database for Xenotransplantation Studies in Zebrafish. Zebrafish. 2020 October; 17 (5): 305-318. doi:10.1089/zeb.2020.1869.

* Lou W, Stimple SD, Desai AA, Makowski EK, Kalyoncu S, Mogensen JE, Spang LT, Asgreen DJ, Staby A, Duus K, Amstrup J, Zhang Y, Tessier PM. Directed evolution of conformation-specific antibodies for sensitive detection of polypeptide aggregates in therapeutic drug formulations. Biotechnology and bioengineering. 2020 October; 118 (2): 797-808. doi:10.1002/bit.27610.

Chai C, Cox B, Yaish D, Gross D, Rosenberg N, Amblard F, Shemuelian Z, Gefen M, Korach A, Tirosh O, Lanton T, Link H, Tam J, Permikov A, Ozhan G, Citrin J, Liao H, Tannous M, Hahn M, Axelrod J, Arretxe E, Alonso C, Martinez-Arranz I, Betés PO, Safadi R, Salhab A, Amer J, Tber Z, Mengshetti S, Giladi H, Schinazi RF, Galun E. Agonist of RORA Attenuates Non-Alcoholic Fatty Liver Progression in Mice via Upregulation of microRNA 122. Gastroenterology. 2020 September; 159 (3): 999-1014.e9. doi:10.1053/j.gastro.2020.05.056.

Ece Cakiroglu, Serif Senturk. Genomics and Functional Genomics of Malignant Pleural Mesothelioma. International Journal of Molecular Sciences. 2020 September; 21 (17): E6342. doi:10.3390/ijms21176342.

Seda Nur Topkaya and Arif E. Cetin. Electrochemical Aptasensors for Biological and Chemical Analyte Detection. ELECTROANALYSIS. 2020 September. doi:10.1002/elan.202060388.

Çekok K, Kahraman T, Duran G, Dönmez Çolakoğlu B, Yener G, Yerlikaya D, Genç A. Timed Up and Go Test With a Cognitive Task: Correlations With Neuropsychological Measures in People With Parkinson's Disease. Cureus. 2020 September; 12 (9): e10604. doi:10.7759/cureus.10604.

Yilmaz F, Berk AT, Yilmaz O, Lebe BK, Keskinoglu P, Bagriyanik HA. Comparison of the local effects of different intracameral cefuroxime solutions on rabbit cornea. Cutaneous and ocular toxicology. 2020 September: 1-9. doi:10.1080/15569527.2020.1813748.

Olcum M, Tastan B, Ercan I, Eltutan IB, Genc S. Inhibitory effects of phytochemicals on NLRP3 inflammasome activation: A review. Phytomedicine : international journal of phytotherapy and phytopharmacology. 2020 August; 75: 153238. doi:10.1016/j.phymed.2020.153238.

Paketci C , Edem P , Hiz S , Sonmezler E , Soydemir D , Sarikaya Uzan G ,Oktay Y, O'Heir E , Beltran S, Laurie S, Töpf A, Lochmuller H, Horvath R, Yis U. Successful treatment of intractable epilepsy with ketogenic diet therapy in twins with ALG3-CDG. Brain and Development. 2020 August; 42 (7): 539-545. doi:10.1016/j.braindev.2020.04.008.

Küçük C, Wei L, You H. Indolent T-Cell Lymphoproliferative Disease of the GI Tract: Insights for Better Diagnosis, Prognosis, and Appropriate Therapy. Frontiers in oncology. 2020 August; 10: 1276. doi:10.3389/fonc.2020.01276.

Melikov R, Srivastava SB, Karatum O, Dogru-Yuksel IB, Bahmani Jalali H, Sadeghi S, Dikbas UM, Ulgut B, Kavakli IH, Cetin AE, Nizamoglu S. Plasmon-Coupled Photocapacitor Neuromodulators. ACS applied materials & interfaces. 2020 August; 12 (32): 35940-35949. doi:10.1021/acsami.0c09455.

Eskier D, Karakülah G, Suner A, Oktay Y. RdRp mutations are associated with SARS-CoV-2 genome evolution. PeerJ. 2020 July; 8: e9587. doi:10.7717/peerj.9587.

Mehmet Ergüven, Kasım Diril. Investigating the determinants of mammalian Mastl kinase activation. BioRxiv. 2020 July: 179580. doi:10.1101/2020.06.30.179580.

Topel H, Bagirsakci E, Comez D, Bagci G, Cakan-Akdogan G, Atabey N. lncRNA HOTAIR overexpression induced downregulation of c-Met signaling promotes hybrid epithelial/mesenchymal phenotype in hepatocellular carcinoma cells. Cell communication and signaling : CCS. 2020 July; 18 (1): 110. doi:10.1186/s12964-020-00602-0.

Kara E, Kahraman E, Dayar E, Yetik Anacak G, Demir O, Gidener S, Atabey N, Durmus N. The role of resistin on metabolic syndrome-induced erectile dysfunction and the possible therapeutic effect of Boldine. Andrology. 2020 July. doi:10.1111/andr.12853.

Tozburun S. Superficial photothermal laser ablation of ex vivo sheep esophagus using a cone-shaped optical fiber tip. Journal of biophotonics. 2020 June; 13 (6): e201960116. doi:10.1002/jbio.201960116.

Oktay Y, Güngör S, Zeltner L, Wiethoff S, Schöls L, Sonmezler E, Yilmaz E, Munro B, Bender B, Kernstock C, Kaemereit S, Liepelt I, Töpf A, Yis U, Laurie S, Yaramis A, Zuchner S, Hiz S, Lochmüller H, Schüle R, Horvath R. Confirmation of TACO1 as a Leigh Syndrome Disease Gene in Two Additional Families. Journal of neuromuscular diseases. 2020 June; 7 (3): 301-308. doi:10.3233/JND-200510.

Eskier D, Suner A, Karakülah G, Oktay Y. Mutation density changes in SARS-CoV-2 are related to the pandemic stage but to a lesser extent in the dominant strain with mutations in spike and RdRp. PeerJ. 2020 June; 8: e9703. doi:10.7717/peerj.9703.

Boopathi R, Danev R, Khoshouei M, Kale S, Nahata S, Ramos L, Angelov D, Dimitrov S, Hamiche A, Petosa C, Bednar J. Phase-plate cryo-EM structure of the Widom 601 CENP-A nucleosome core particle reveals differential flexibility of the DNA ends. Nucleic acids research. 2020 June; 48 (10): 5735-5748. doi:10.1093/nar/gkaa246.

Zehra Tavsan, Hulya Ayar Kayali. Protein Kinase C regulates the complex between cell membrane molecules in ovarian cancer. Process Biochemistr. 2020 May; 92: 182-189. doi:10.1016/j.procbio.2020.01.009.

Doğa Eskier, Gökhan Karakülah, Aslı Suner, Yavuz Oktay. RdRp mutations are associated with SARS-CoV-2 genome evolution. BioRxiv. 2020 May. doi:10.1101/2020.05.20.104885.

Karagonlar ZF, Akbari S, Karabicici M, Sahin E, Avci ST, Ersoy N, Ates KE, Balli T, Karacicek B, Kaplan KN, Celiker C, Atabey N, Erdal E. A Novel Function for KLF4 in Modulating the De-differentiation of EpCAM -/CD133 - nonStem Cells Into EpCAM +/CD133 + Liver Cancer Stem Cells in HCC Cell Line HuH7. Cells. 2020 May; 9 (5): 1198. doi:10.3390/cells9051198.

Seda Nur Topkaya, Ayca Karasakal, Arif E. Cetin, Sulunay Parlar, and Vildan Alptuzun. Electrochemical Characteristics of a Novel Pyridinium Salt as a Candidate Drug Molecule and Its Interaction with DNA. ELECTROANALYSIS. 2020 April; 32 (8): 1780-1787. doi:10.1002/elan.202000012.

Belotti E, Lacoste N, Simonet T, Papin C, Padmanabhan K, Scionti I, Gangloff YG, Ramos L, Dalkara D, Hamiche A, Dimitrov S, Schaeffer L. H2A.Z is dispensable for both basal and activated transcription in post-mitotic mouse muscles. Nucleic acids research. 2020 April. doi:10.1093/nar/gkaa157.

Dilucca M, Forcelloni S, Georgakilas AG, Giansanti A, Pavlopoulou A. Codon Usage and Phenotypic Divergences of SARS-CoV-2 Genes. Viruses. 2020 April; 12 (5). doi:10.3390/v12050498.

Özdemir S, Şengez B, Arslanoğlu A. Human immunodeficiency virus type-1 Tat protein induces secretory leukocyte protease inhibitor expression in African green monkey but not human cells. Virus genes. 2020 April; 56 (2): 182-193. doi:10.1007/s11262-020-01731-x.

Ana Töpf, Yavuz Oktay, Sunitha Balaraju, Elmasnur Yilmaz, Ece Sonmezler, Uluc Yis, Steven Laurie, Rachel Thompson, Andreas Roos, Daniel G MacArthur, .... Severe neurodevelopmental disease caused by a homozygous TLK2 variant. European journal of human genetics. 2020 March; 28 (3): 383-387. doi:10.1038/s41431-019-0519-x.

Serap Erkek. Mesane gen regülasyonunda etkili süper-enhancer’ların belirlenmesi. Türk Hijyen ve Deneysel Biyoloji Dergisi. 2020 March; 77 (1): 41-50. doi:10.5505/TurkHijyen.2019.81904.

Ceren Durmaz Engin, Serap Cilaker Micili, Osman Yilmaz, Husnu Alper Bagriyanik, Bekir Ugur Ergur, Fatos Onen, Ali Osman Saatci. Ocular toxicity of intravitreal Golimumab in a rabbit model. TURKISH JOURNAL OF MEDICAL SCIENCES. 2020 March; 50 (4): 1111-1122. doi:10.3906/sag-1911-11.

Tavsan, Z., Ayar Kayali H. EpCAM-claudin-tetraspanin-modulated ovarian cancer progression and drug resistance. Cell Adhesion & Migration. 2020 February; 14 (1): 57-68. doi:10.1080/19336918.2020.1732761.

Ceylan D, Tufekci KU, Keskinoglu P, Genc S, Özerdem A. Circulating exosomal microRNAs in bipolar disorder. Journal of affective disorders. 2020 February; 262: 99-107. doi:10.1016/j.jad.2019.10.038.

Küçük C. Genetic susceptibility to natural killer T-cell lymphoma. The Lancet. Oncology. 2020 February; 21 (2): 196-197. doi:10.1016/S1470-2045(19)30820-4.

Karaoğlan M, Erden-Karaoğlan F, Yılmaz S, İnan M. Identification of major ADH genes in ethanol metabolism of Pichia pastoris. Yeast. 2020 February; 37 (2): 227-236. doi:10.1002/yea.3443.

Arif E. Cetin, Cihan Yilmaz, Betty C. Galarreta, Gizem Yilmaz, Hatice Altug and Ahmed Busnaina. Fabrication of Sub-10 nm Plasmonic Gaps for Ultra-Sensitive Raman Spectroscopy. PLASMONICS. 2020 February. doi:10.1007/s11468-020-01137-3.

Esmeray E, Küçük C. Genetic alterations in B cell lymphoma subtypes as potential biomarkers for noninvasive diagnosis, prognosis, therapy, and disease monitoring. Turkish journal of biology = Turk biyoloji dergisi. 2020 February; 44 (1): 1-14. doi:10.3906/biy-1908-23.

Szmyd R, Niska-Blakie J, Diril MK, Nunes PR, Tzelepis K, Lacroix A, van Hul N, Deng LW, Matos J, Dreesen O, Bisteau X, Kaldis P. Correction: Premature activation of Cdk1 leads to mitotic events in S phase and embryonic lethality. Oncogene. 2020 February; 39 (9): 2030. doi:10.1038/s41388-019-1114-x.

* PCAWG Transcriptome Core Group., Calabrese C, Davidson NR, Demircioğlu D, Fonseca NA, He Y, Kahles A, Lehmann KV, Liu F, Shiraishi Y, Soulette CM, Urban L, Greger L, Li S, Liu D, Perry MD, Xiang Q, Zhang F, Zhang J, Bailey P, Erkek S, Hoadley KA, Hou Y, Huska MR, Kilpinen H, Korbel JO, Marin MG, Markowski J, Nandi T, Pan-Hammarström Q, Pedamallu CS, Siebert R, Stark SG, Su H, Tan P, Waszak SM, Yung C, Zhu S, Awadalla P, Creighton CJ, Meyerson M, Ouellette BFF, Wu K, Yang H, PCAWG Transcriptome Working Group., Brazma A, Brooks AN, Göke J, Rätsch G, Schwarz RF, Stegle O, Zhang Z, PCAWG Consortium.. Genomic basis for RNA alterations in cancer. Nature. 2020 February; 578 (7793): 129-136. doi:10.1038/s41586-020-1970-0.

Küçük C, Wang J, Xiang Y, You H. Epigenetic aberrations in natural killer/T-cell lymphoma: diagnostic, prognostic and therapeutic implications. Therapeutic advances in medical oncology. 2020 February; 12: 1758835919900856. doi:10.1177/1758835919900856.

Subasi, E., Atalay, E. B., Erdogan, D., Sen, B., Pakyapan, B., Kayali, H. A.. Synthesis and characterization of thiosemicarbazone-functionalized organoruthenium (II)-arene complexes: Investigation of antitumor characteristics in colorectal cancer cell lines. Materials Science and Engineering: C. 2020 January; 106 (110152). doi:10.1016/j.msec.2019.110152.

Ahmet Yaramis, Hanns Lochmüller, Ana Töpf, Ece Sonmezler, Elmasnur Yilmaz, Semra Hiz, Uluc Yis, Serdal Gungor, Ayse Ipek Polat, Pinar Edem, Sergi Beltran, Steven Laurie, Aysenur Yaramis, Rita Horvath, Yavuz Oktay. COL4A1-related autosomal recessive encephalopathy in 2 Turkish children. Neurology Genetics. 2020 January; 6 (1): 1. doi:10.1212/NXG.0000000000000392.

Melike Tetik, Nese Direk, Betul Onder, Cansu Aykac, Burcu Ekinci, Tutku Yaras, Aykut Kuruoglu, Cagatay Ermis, Tunc Alkin, Yavuz Oktay. Blood Levels of NLRP3 Inflammasome Components is Associated with Obsessive Compulsive Disorder. Biological Psychiatry. 2020 January. doi:10.1101/2020.01.30.20019646.

Olcum M, Tastan B, Kiser C, Genc S, Genc K. Microglial NLRP3 inflammasome activation in multiple sclerosis. Advances in protein chemistry and structural biology. 2020 January; 119: 247-308. doi:10.1016/bs.apcsb.2019.08.007.

Pradas-Juni M, Hansmeier NR, Link JC, Schmidt E, Larsen BD, Klemm P, Meola N, Topel H, Loureiro R, Dhaouadi I, Kiefer CA, Schwarzer R, Khani S, Oliverio M, Awazawa M, Frommolt P, Heeren J, Scheja L, Heine M, Dieterich C, Büning H, Yang L, Cao H, Jesus DF, Kulkarni RN, Zevnik B, Tröder SE, Knippschild U, Edwards PA, Lee RG, Yamamoto M, Ulitsky I, Fernandez-Rebollo E, Vallim TQA, Kornfeld JW. A MAFG-lncRNA axis links systemic nutrient abundance to hepatic glucose metabolism. Nature communications. 2020 January; 11 (1): 644. doi:10.1038/s41467-020-14323-y.

Karadag M, Arslan M, Kaleli NE, Kalyoncu S. Physicochemical determinants of antibody-protein interactions. Advances in protein chemistry and structural biology. 2020 January; 121: 85-114. doi:10.1016/bs.apcsb.2019.08.011.