Welcome to the Koç University Institutional Academic Repository
The Koç University Institutional Academic Repository (KUHub Research) is a state-of-the-art academic repository that consolidates all academic outputs—such as articles, conference proceedings, theses, research data, and more—produced by the university since its establishment in 1993.
KUHub Research adheres to the principles of Open Access and FAIR (Findable, Accessible, Interoperable, Reusable), providing access to the bibliographic records, research data, and full texts of research outputs. Equipped with innovative features such as Author Profile pages and enhanced tools, KUHub Research aims to enhance the visibility of researchers both nationally and internationally. KUHub Research aims to preserve and maintain Koç University's valuable academic legacy for future generations while also serving the needs of today’s researchers.
For more information or inquiries please contact openaccess@ku.edu.tr
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Recent Submissions
Mechanisms of fast CO2 fixation reaction by enoyl-CoA carboxylases/reductase
(European Synchrotron Radiation Facility, 2028-01-01) Chretien, Anaïs; Ertem Kuzucu, Fatma Betul; Summers, Jacob; Wranik, Maximilian; 0000-0001-8480-1443; 0000-0002-2144-989x; 0000-0003-3113-0353; 0000-0002-2482-0164
Carbon dioxide (CO2) is an atmospheric greenhouse gas that feeds all life, plays a critical role in global warming, and could constitute an inexpensive carbon source for future sustainable industries. While synthetic chemistry lacks suitable catalysts to functionalize carbon dioxide in mild reaction conditions, autotrophs do it constantly, and thus there is increasing interest in exploiting the CO2-fixation mechanisms offered by nature. In this exchange proposal, we propose fast time-resolved structural-dynamics studies of one of the fastest CO2-fixation enzymes, enoyl-CoA carboxylase/reductase (ECR), using ambient temperature serial X-ray crystallography on Beamline ID29, ESRF, which achieves 10μs resolution. This study will reveal details of the enzyme subunit coupling as well as the enzyme-substrate interactions to correlate the structural and functional states of the enzyme during fixation and pave the way for faster biomolecule productions using engineered C-cycling enzymes.
Mechanisms of fast CO2 fixation reaction by enoyl-CoA carboxylases/reductase
(European Synchrotron Radiation Facility, 2027-01-01) Summers, Jacob; Sanctis, Daniele; Vlahakis, Niko; Knight, Victoria; Ertem Kuzucu, Fatma Betul; Chretien, Anaïs; Nurizzo, Didier; 0000-0003-3113-0353; 0000-0003-0391-8290; 0000-0002-5092-0265; 0000-0002-2144-989x; 0000-0001-8480-1443; 0000-0002-7367-5098
Carbon dioxide (CO2) is an atmospheric greenhouse gas that feeds all life, plays a critical role in global warming, and could constitute an inexpensive carbon source for future sustainable industries. While synthetic chemistry lacks suitable catalysts to functionalize carbon dioxide in mild reaction conditions, autotrophs do it constantly, and thus there is increasing interest in exploiting the CO2-fixation mechanisms offered by nature. In this exchange proposal, we propose fast time-resolved structural-dynamics studies of one of the fastest CO2-fixation enzymes, enoyl-CoA carboxylase/reductase (ECR), using ambient temperature serial X-ray crystallography on Beamline ID29, ESRF, which achieves 10μs resolution. This study will reveal details of the enzyme subunit coupling as well as the enzyme-substrate interactions to correlate the structural and functional states of the enzyme during fixation and pave the way for faster biomolecule productions using engineered C-cycling enzymes.
Galois theory of quadratic rational functions with periodic critical points
(Academic Press Inc., 2026) Ejder, Özlem (57202543413)
Given a number field k, and a quadratic rational function f(x)∈k(x), the associated arboreal representation of the absolute Galois group of k is a subgroup of the automorphism group of a regular rooted binary tree. Boston and Jones conjectured that the image of such a representation for f∈Z[x] contains a dense set of settled elements. An automorphism is settled if the number of its orbits on the nth level of the tree remains small as n goes to infinity. In this article, we exhibit many quadratic rational functions whose associated Arboreal Galois groups are not densely settled. These examples arise from quadratic rational functions whose critical points lie in a single periodic orbit. To prove our results, we present a detailed study of the iterated monodromy groups (IMG) of f, which also allows us to provide a negative answer to Jones and Levy's question regarding settled pairs. Furthermore, we study the iterated extension k(f−∞(t)) generated by adjoining to k(t) all roots of fn(x)=t for n≥1 for a parameter t. We call the intersection of k(f−∞(t)) with k¯, the field of constants associated with f. When one of the two critical points of f is the image of the other, we show that the field of constants is contained in the cyclotomic extension of k generated by all 2-power roots of unity. In particular, we prove the conjecture of Ejder, Kara, and Ozman regarding the rational function [Formula presented]. © 2025 Elsevier B.V., All rights reserved.
Children's say in the household
(Elsevier B.V., 2026) Sözbir, Ömer Faruk (57997516700)
Analyzing children's agency is crucial for understanding the inner workings of households. This issue is especially salient for developing countries, as childless families constitute a small portion of the population. This study tests the intra-household decision-making power of work-eligible children (age 12–17) in rural Bangladesh using a restriction implied by the collective household model. By comparing households with working and non-working children, the study also tests whether working children have a greater say in their households than non-working ones. The findings suggest some evidence for children's decision-making power. The unitary household model is strongly rejected, and there is no evidence against Pareto efficiency. The results are particularly useful for the growing body of research that estimates intra-household inequality and individual-level poverty in developing countries using the collective model with certain assumptions on children's decision-making power. In addition to investigating children's say in the household, the study addresses several methodological issues in the literature regarding the price-based test of alternative collective models and Pareto efficiency. © 2025 Elsevier B.V.
Accelerating Simulations of Bitvector-Based LDP Protocols via Binomial Modeling
(Springer Science and Business Media Deutschland GmbH, 2026) Karataş, Yusuf Cemal; Gürsoy, Mehmet Emre (56888513800)
Local Differential Privacy (LDP) has recently emerged as a popular standard for privacy-preserving data collection, and bitvector-based LDP protocols such as RAPPOR and OUE are widely used in both academic and industrial applications. To evaluate LDP protocols and applications, researchers commonly rely on simulation-based experiments, where multiple users’ perturbations are simulated sequentially on one computer. While faithful to protocol definitions, this approach incurs substantial execution times, especially for large user populations and domains. To address this concern and enable fast simulations, in this paper, we propose a novel simulation methodology for bitvector-based LDP protocols. Our key insight is to model the collective effect of randomized perturbation using Binomial random variables, avoiding the need to simulate each user individually. We theoretically and empirically show that this strategy reduces computational complexity while producing unbiased estimations with identical variance to RAPPOR and OUE. Furthermore, we empirically show that our method reduces execution times from several minutes to less than a second, yielding multiple orders of magnitude improvement. Overall, our work offers a fast and scalable method for simulating bitvector-based LDP protocols, with direct applicability to existing works and simulation platforms. © The Author(s), under exclusive license to Springer Nature Singapore Pte Ltd. 2026.