Deniz Aydin

ORCID: 0000-0002-2758-2480
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About
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Research Areas
  • Economic Theory and Policy
  • Housing Market and Economics
  • Housing, Finance, and Neoliberalism
  • Coenzyme Q10 studies and effects
  • Receptor Mechanisms and Signaling
  • Banking stability, regulation, efficiency
  • Advanced Fiber Optic Sensors
  • Neuropeptides and Animal Physiology
  • Photonic and Optical Devices
  • Photonic Crystals and Applications
  • Mitochondrial Function and Pathology
  • Merger and Competition Analysis
  • Computational Drug Discovery Methods
  • ATP Synthase and ATPases Research
  • Economic Theory and Institutions
  • Alkaloids: synthesis and pharmacology
  • Photonic Crystal and Fiber Optics
  • Pharmacogenetics and Drug Metabolism
  • Oceanographic and Atmospheric Processes
  • Geophysics and Sensor Technology
  • Photosynthetic Processes and Mechanisms
  • Hematological disorders and diagnostics
  • Credit Risk and Financial Regulations
  • Drug Transport and Resistance Mechanisms
  • Optical Network Technologies

Stanford University
2021-2025

École Polytechnique Fédérale de Lausanne
2014-2024

Near East University
2015-2024

New York University
2024

Washington University in St. Louis
2024

University of Victoria
2021-2023

Giresun University
2022

Stanford Medicine
2021

SIB Swiss Institute of Bioinformatics
2016-2020

Niğde Ömer Halisdemir Üniversitesi
2020

Compact interferometers based on waveguiding structures have found countless applications in refractive index measurements, chemical sensing, as well temperature and pressure measurements. The most common fiber devices are Mach–Zehnder interferometry Michelson interferometry—two design concepts that can readily be implemented using simple optic components, such mode splitters combiners, gratings, tapers, among others. Fiber also conducted the Sagnac effect Young (double-slit) interferometer....

10.1063/5.0105147 article EN Applied Physics Reviews 2023-02-09

Science instructors from a wide range of disciplines agree that hands-on laboratory components courses are pedagogically necessary (Freedman, 1997). However, certain shortcomings current exercises have been pointed out by several authors (Mataric, 2004; Hofstein and Lunetta, 2004). The overarching theme these analyses is tend to be formulaic, closed-ended, at times outdated. To address issues, we envision novel platform not only didactic tool but also an experimental testbed for users play...

10.7551/978-0-262-32621-6-ch022 article EN 2014-07-06

The mu opioid receptor (μOR) is a target for clinically used analgesics. However, adverse effects, such as respiratory depression and physical dependence, necessitate the development of alternative treatments. Recently we reported novel strategy to design functionally selective opioids by targeting sodium binding allosteric site in μOR with supraspinally active analgesic named C6guano. Presently, improve systemic activity this ligand, structure-based design, identifying new ligand RO76 where...

10.1021/acscentsci.4c00525 article EN cc-by ACS Central Science 2024-07-17

Uranium is a highly radioactive heavy metal that toxic to living things. In this study, physiological, cytogenetic, biochemical and anatomical toxicity caused by uranium the protective role of sage (Salvia officinalis L.) leaf extract against were investigated with help Allium test. Germination percentage, root length, weight gain, mitotic index (MI), micronucleus (MN) formation, chromosomal aberrations (CAs), superoxide dismutase (SOD) catalase (CAT) enzyme activities, malondialdehyde (MDA)...

10.1038/s41598-022-20115-9 article EN cc-by Scientific Reports 2022-09-23

Biased agonists, which selectively stimulate certain signaling pathways controlled by a G protein-coupled receptor (GPCR), hold great promise as drugs that maximize efficacy while minimizing dangerous side effects. agonists of the μ-opioid (μOR) are particular interest means to achieve analgesia through protein without dose-limiting effects such respiratory depression and constipation. Rational structure-based design biased remains highly challenging, however, because ligand-mediated...

10.1021/acs.jcim.1c00585 article EN cc-by-nc-nd Journal of Chemical Information and Modeling 2021-07-12

Science instructors from a wide range of disciplines agree that hands-on laboratory components courses are pedagogically necessary (Freedman, 1997). However, certain shortcomings current exercises have been pointed out by several authors (Mataric, 2004; Hofstein and Lunetta, 2004). The overarching theme these analyses is tend to be formulaic, closed-ended, at times outdated. To address issues, we envision novel platform not only didactic tool but also an experimental testbed for users play...

10.1162/978-0-262-32621-6-ch022 article EN 2014-07-30

Proteins are intrinsically dynamic entities. Flexibility sampling methods, such as molecular dynamics or those arising from integrative modeling strategies, now commonplace and enable the study of conformational landscapes in many contexts. Resulting structural ensembles increase size technological algorithmic advancements take place, making their analysis increasingly demanding. In this regard, cluster remains a go-to approach for classification. However, state-of-the-art algorithms...

10.1093/bioinformatics/btaa742 article EN cc-by-nc Bioinformatics 2020-08-18

Abstract Drugs targeting the G protein-coupled μ-opioid receptor (μOR) are most effective analgesics available but also associated with fatal respiratory depression. While some partial opioid agonists appear to be safer than full agonists, signaling pathways responsible for depression have yet elucidated. Here we investigated structural and mechanistic basis of action lofentanil (LFT) mitragynine pseudoindoxyl (MP), two μOR different safety profiles. LFT, one potent lethal opioids, MP, a...

10.1101/2021.12.07.471645 preprint EN cc-by-nc-nd bioRxiv (Cold Spring Harbor Laboratory) 2021-12-08

Firms with ample financial slack are unconstrained... or they? In a field experiment that randomly expands debt capacity on business credit lines, treated small-and-medium enterprises (SMEs) draw down 35 cents the dollar of expanded in short-run and 55 long-run despite having levels far below their borrowing limit before intervention. SMEs direct new to financing investment gradually over time do not exhibit measurable impact delinquencies. Heterogeneity analysis by risk being at line...

10.2139/ssrn.4700903 article EN SSRN Electronic Journal 2024-01-01

Abstract Inducible gene expression circuits offer precise control over target activation, making them essential tools for direct reprogramming, where cells are guided to differentiate into specific cell types. However, stable circuit function and consistent of key inducible proteins crucial effective DNA methylation-induced silencing hinders this stability. To address issue, A2-ubiquitous chromatin opening elements (A2UCOE) have gained attention their ability maintain open prevent...

10.1101/2024.12.18.629244 preprint EN cc-by-nd bioRxiv (Cold Spring Harbor Laboratory) 2024-12-20

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10.2139/ssrn.3794759 article EN SSRN Electronic Journal 2021-01-01

Guided resonance modes in photonic crystal slab biosensors are characterized. Quality factors for TE-like and TM-like resonances of approximately 3000 1000 respectively observed. These the highest reported values to date.

10.1364/cleo_at.2011.jwa105 article EN 2011-01-01

Abstract Os subtibiale is a rare accessory ossicle of the ankle, considered not clinical significance. But its presence in trauma patients may cause misdiagnosis as malleolar fracture and over-treatment. Because attached to deltoid ligament, ankle that medial compartment injury detach os from malleolus. In these situations, MR imaging help diagnose injury, demonstrate features ossicle, guide treatment.

10.7547/23-059 article EN Journal of the American Podiatric Medical Association 2024-02-27

We present a passive, all-fiber strain sensing system capable of measuring over 75 km using diode laser locked to π-shifted grating, with potential applications develop fiber optic hydrophone.

10.1364/cleo_at.2024.jth2a.183 article EN 2024-01-01

The aim of this study is to design and synthesize novel dual inhibitors Src protein tyrosine kinase (PTK) Glutathione S-transferases (GSTs), as a potential drug lead with therapeutic efficacy on cancer immune disorders. biological activity profiling small molecule via miniaturized biochemical techniques compatible medium throughput screening focused methodologies were performed. To determining the effects Phase II detoxification enzyme GST isozymes in liver homogenates used verify their...

10.2174/1570180811309010019 article EN Letters in Drug Design & Discovery 2012-11-01
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