Graduate School of Marine Sciences

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Recent Submissions

Ocean carbon from space: Current status and priorities for the next decade Brewin, Robert J.W.; et. al. (2023-05-01) The ocean plays a central role in modulating the Earth's carbon cycle. Monitoring how the ocean carbon cycle is changing is fundamental to managing climate change. Satellite remote sensing is currently our best tool for vi...
Comparison of Diffusive and Total Nutrient Fluxes from the Sediment of Mersin Bay, Northeastern Mediterranean Sea Akçay, İsmail (2023-04-01) In this study, sediment diffusive and total nutrient fluxes were calculated for the Mersin Bay, Northeastern (NE) Mediterranean Sea. Positive fluxes of nutrients from the sediments indicated that sediment acts as a source ...
Distinct patterns of sedimentary phosphorus fractionation and mobilization in the seafloor of the Black Sea, Marmara Sea and Mediterranean Sea Akçay, İsmail; Yücel, Mustafa (2023-03-10) Phosphorus (P) is a key element to all life that is used for structural and functional component of all organisms. The cycling of sedimentary P may differ depending on the redox-conditions of the overlying waters affecting...
Morphology, Molecular Genetics and Potential Importance for Mucilage Events of the New Coccolithophorid Ochrosphaera neapolitana in the Sea of Marmara Eker-Develi, Elif; Tekdal, Dilek; Demet, Atıf Emre; Yıldız, Hüseyin Bekir; Kıdeyş, Ahmet Erkan (2023-03-01) The coccolithophorid Ochrosphaera neapolitana was reported for the first time from samples obtained during a large-scale mucilage event in the Sea of Marmara in May 2022 in a previous study. We also found this species in o...
Phylogeographic and Morphological Analysis of Botrylloides niger Herdman, 1886 from the Northeastern Mediterranean Sea Temiz, Berivan; Öztürk, Esra; Blanchoud, Simon; Karahan, Arzu (2023-03-01)
Differences in food web structure and composition between new and nearby older lakes in West Greenland suggest succession trajectories driven by glacier retreat Jeppesen, Erik; Davidson, Thomas A.; Meerhoff, Mariana; De Meester, Luc; Gonzalez-Bergonzoni, Ivan; Vidal, Nicolas; Arndt, Hartmut; Juergens, Klaus; Sommaruga, Ruben; Özkan, Korhan; Lauridsen, Torben L.; Tserenpil, Sh (2023-03-01) With the retreat of glaciers, new ponds and lakes are often formed. These are gradually colonised and become more productive as vegetation develops in their catchments, creating more complex food webs. Near the Jakobshavn ...
Estimation of nutrient fluxes from the flooding of the Wadi Gaza catchment into the Mediterranean Sea Al-Najjar, Hassan; Purnama, Anton; Özkan, Korhan (2023-03-01) The coastal catchment of Wadi Gaza is the main surface water basin that flows down to Gaza coastal plain zone and drains into the Mediterranean Sea. The modeling-based assessment of the hydrological system is an essential ...
Fisheries impact on the Sea of Marmara ecosystem structure and functioning during the last three decades SAYGU, İSMET; Akoğlu, Ekin; Gül, Güzin; Bedikoğlu, Dalida; DEMİREL EROL, Nazlı (2023-1-13) The Sea of Marmara (SoM), without doubt, is one of the most disturbed marine ecosystems of the Mediterranean basin. As a semi-enclosed and a recognized eutrophic basin, it has a unique natural characteristic by permanent s...
Annual reproductive cycle of a successful Lessepsian immigrant in the Eastern Mediterranean Sea, Pomadasys stridens (Forsskål, 1775) (Family: Haemulidae) Eşkinat, Deniz; Gücü, Ali Cemal; Ok, Meltem (2023-01-01) The striped piggy, Pomadasys stridens (Forsskål, 1775), is one of the successfully colonized Lessepsian immigrants entering the Mediterranean through the Suez Canal. This study was carried out to understand to what extent ...
Uncovering ecological regime shifts in the Sea of Marmara and reconsidering management strategies DEMİREL EROL, Nazlı; Akoğlu, Ekin; Ulman, Aylin; Ertor-Akyazi, Pınar; Gül, Güzin; Bedikoğlu, Dalida; YILDIZ, Taner; Yilmaz, I. Noyan (2023-01-01) Ecosystem regime shifts can alter ecosystem services, affect human well-being, and trigger policy conflicts due to economic losses and reductions in societal and environmental benefits. Intensive anthropogenic activities m...
Göksu Nehri Deltası ve civarı ihtiyoplankton faunası Ak Örek, Yeşim; Uysal, Zahit (2022-12-01) Bu çalışmada Ekim 2017-Temmuz 2018 döneminde Çukurova kıta sahanlığı sularında Göksu Nehri etki alanıve civarında mevsimlik Kemikli balık (Teleostei) yumurta ve larvalarının dağılım, bolluk ve tür çeşitliliğibelirlenerek b...
The Genomic Landscape of Deubiquitinating Enzymes Across Breast Cancer Subtypes Bınarcı, Büşra; Tuncer, Taner; Akman, H. Begüm (Orta Doğu Teknik Üniversitesi Enformatik Enstitüsü; 2022-10) Breast cancer, the most frequently diagnosed malignancy in women worldwide, is a highly heterogeneous disease on the molecular level and is classified into multiple subtypes [1]. There are 4 major subtypes of breast cancer...
High Precision Femtosecond Laser Ablation ICP-MS Measurement of Benthic Foraminiferal Mn-Incorporation for Paleoenvironmental Reconstruction: A Case Study From the Plio-Pleistocene Caribbean Sea Oegretmen, N.; Schiebel, R.; Jochum, K. P.; Galer, S.; Leitner, J.; Khanolkar, S.; Yücel, Mustafa; Stoll, B.; Weis, U.; Haug, G. H. (2022-10-01) Closure of the Central American Seaway (CAS) and hydrology of the Caribbean Sea triggered Northern Hemisphere Glaciation and played an important role in the Pliocene to modern-day climate re-establishing the deep and surfa...
Machine learning-based prediction of survival in cancer using multi-omics data Çoruh, Ayşe Nur; Doğan, Tunca (Orta Doğu Teknik Üniversitesi Enformatik Enstitüsü; 2022-10) Machine learning-based prediction of survival in cancer using multi-omics data Ayşe Nur Çoruh1,2, Tunca Doğan1,2,* 1Biological Data Science Lab, Department of Computer Engineering, Hacettepe University, Ankara, Turkey 2Dep...
Predictingprotein-protein interactions usingGCN-based encoder-decoder combined with a transformer ODTÜ, Deniz Bilimleri Enstitüsü (Orta Doğu Teknik Üniversitesi Enformatik Enstitüsü; 2022-10) Predicting protein-protein interactions using GCN-based encoder-decoder combined with a transformer Proteins are large and complex molecules that play countless roles throughout the biological world. They interact through ...
Insight into impact of high resistance-causing mutations on penicillin binding protein 3 of h. influenzae suggests an alternative approach for combating antibiotic resistance Alhamwi, Almotasem belah; Atılgan, Canan; Sensoy, Ozge (Orta Doğu Teknik Üniversitesi Enformatik Enstitüsü; 2022-10) Currently prescribed antibiotics target predominantly the catalytic site of bacterial proteins. Moreover, they focus on wild-type proteins; however, bacteria adopt mutations to survive in their challenging environment. Acc...
A novel phylogeny-dependent coevolution algorithm Kuru, Nurdan; Adebali, Ogün (Orta Doğu Teknik Üniversitesi Enformatik Enstitüsü; 2022-10)
The effect of divalent ions on the interactions between histones and dna Çavdar, Gözdem; Kale, Seyit (Orta Doğu Teknik Üniversitesi Enformatik Enstitüsü; 2022-10) In eukaryotes, ̃147 bp of DNA is packaged around histones (H2A, H2B, H3, H4) corresponding to helices (a1, a2, and a3). These helices interact to form the octamer called nucleosome, the basic repeating unit of chromatin. ...
Eddy Induced Cross-Shelf Exchanges in the Black Sea Akpinar, Anil; Sadighrad, Ehsan; Fach Salihoğlu, Bettina Andrea; Arkin, Şadi Sinan (2022-10-01) Cross-shelf exchanges in the Black Sea were investigated using remote sensing data and an ocean circulation model to which an eddy-tracking algorithm and Lagrangian particle tracking model was applied. An anticyclonic eddy...
Discovering more efficient production pathways of plant secondary metabolites through retrosynthesis Yonet , Nilay; Yilmaz, Alper (Orta Doğu Teknik Üniversitesi Enformatik Enstitüsü; 2022-10) Plant secondary metabolites constitute a useful array of natural ingredients, especially for therapeutics, the food additives industry, and many other industrial fields. Thereby, metabolic engineers are looking for alterna...

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