Cenk Onur Gürdap

ORCID: 0000-0002-5327-2523
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About
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Research Areas
  • Lipid Membrane Structure and Behavior
  • RNA and protein synthesis mechanisms
  • Protein Structure and Dynamics
  • Cellular transport and secretion
  • RNA modifications and cancer
  • RNA Research and Splicing
  • Origins and Evolution of Life
  • Biotechnology and Related Fields
  • Microfluidic and Bio-sensing Technologies
  • Gene Regulatory Network Analysis
  • 3D Printing in Biomedical Research
  • Glycosylation and Glycoproteins Research
  • Click Chemistry and Applications
  • Erythrocyte Function and Pathophysiology
  • Nicotinic Acetylcholine Receptors Study
  • RNA Interference and Gene Delivery
  • Nanopore and Nanochannel Transport Studies
  • Botulinum Toxin and Related Neurological Disorders
  • DNA and Nucleic Acid Chemistry
  • Pain Mechanisms and Treatments
  • Receptor Mechanisms and Signaling
  • Advanced biosensing and bioanalysis techniques
  • Musculoskeletal pain and rehabilitation
  • Sphingolipid Metabolism and Signaling
  • Single-cell and spatial transcriptomics

Karolinska Institutet
2021-2025

Science for Life Laboratory
2021-2025

Middle East Technical University
2019

The dynamic behavior of plasma membrane proteins mediates various cellular processes such as motility, communication, and signaling. It is widely accepted that the dynamics determined either by interactions transmembrane domain with surrounding lipids or intracellular cytosolic components cortical actin. Although initiation different signaling events at has been attributed to extracellular (ECD) properties recently, impact ECDs on rather unexplored. Here, we investigate how ECD influence...

10.1016/j.bpj.2022.09.010 article EN cc-by Biophysical Journal 2022-09-14

The synthesis of life from non-living matter has captivated scientists for centuries. It is a grand challenge aimed at unraveling the fundamental principles and leveraging its unique features, such as resilience, sustainability, ability to evolve. Synthetic holds immense potential in biotechnology, medicine, materials science. Advancements synthetic biology, systems chemistry, biophysics have brought us closer achieving this ambitious goal. Researchers successfully assembled cellular...

10.26434/chemrxiv-2024-tnx83 preprint EN 2024-07-10

Abstract Understanding the structure and function of nucleic acids in their native environment is crucial to structural biology one focus in-cell NMR spectroscopy. Many challenges hamper human cell lines, e.g. sample decay through death RNA degradation. The resulting low signal intensities broad line widths limit use more complex experiments, reducing possible dynamic information that can be extracted. Here, we optimize detection imino proton signals, indicators base-pairing therefore...

10.1007/s10858-024-00448-5 article EN cc-by Journal of Biomolecular NMR 2024-08-20

The glycosylation of cellular membranes is crucial for the survival and communication cells. As our target engineering glycocalyx, we designed a functionalized lipid anchor introduction into called Functional Lipid Anchor MEmbranes (FLAME). Since cholesterol incorporates very effectively membranes, developed twice cholesterol-substituted in total synthesis by applying protecting group chemistry. We labeled compound with fluorescent dye, which allows cell visualization. FLAME was successfully...

10.1021/acs.bioconjchem.3c00091 article EN Bioconjugate Chemistry 2023-06-16

Solution NMR spectroscopy is a well-established tool with unique advantages for structural studies of RNA molecules. However, large sequences, the resonances often overlap severely. A reliable way to perform resonance assignment and allow further analysis despite spectral crowding use site-specific isotope labeling in sample preparation. While solid-phase oligonucleotide synthesis has several advantages, length availability isotope-labeled building blocks are persistent issues. Purely...

10.1371/journal.pone.0264662 article EN cc-by PLoS ONE 2022-07-08

Chronic neuropathic pain is a burden to millions of patients every day. Patients with will also experience acute throughout their everyday lives adding nociceptive burden. Using models in mice this study aimed investigate the relationship between visceral and chronic spontaneous affective behaviors. Neuropathic was induced by constriction injury (CCI) sciatic nerve C57BL/6J male examined assays acetic acid (AA)-induced stretching or conditioned place aversion assess aversive Stretching low...

10.1097/fbp.0000000000000486 article EN Behavioural Pharmacology 2019-04-29

Abstract Solution NMR spectroscopy is a well-established tool with unique advantages for structural studies of RNA molecules. However, large sequences, the resonances often overlap severely. A reliable way to perform resonance assignment and allow further analysis despite spectral crowding use site-specific isotope labeling in sample preparation. While solid-phase oligonucleotide synthesis has several advantages, length availability isotope-labeled building blocks are persistent issues....

10.1101/2022.02.16.480708 preprint EN cc-by bioRxiv (Cold Spring Harbor Laboratory) 2022-02-16

Because of their implications in several pathological conditions, α4β2* nicotinic acetylcholine receptors (nAChRs) are potential targets for the treatment nicotine dependence, pain, and many psychiatric neurodegenerative diseases. However, they exist various subtypes, finding selective tools to investigate them has proved challenging. The receptor agonist, 5-iodo-A-85380 (5IA), helped delineating function β2-containing subtypes vitro; however, much is still unknown about its behavioral...

10.1177/02698811221132214 article EN Journal of Psychopharmacology 2022-11-01

ABSTRACT The dynamic behavior of plasma membrane proteins mediates various cellular processes such as motility, communication, and signaling. It is widely accepted that the dynamics determined either by interactions transmembrane domain with surrounding lipids or intracellular cytosolic components cortical actin. Although initiation different signaling events at has been attributed to extracellular (ECD) properties recently, impact ECDs on rather unexplored. Here, we investigate how ECD...

10.1101/2021.11.15.468619 preprint EN cc-by-nc bioRxiv (Cold Spring Harbor Laboratory) 2021-11-16
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