Moleküler Biyoteknoloji
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Identification of deleterious non-synonymous single nucleotide polymorphisms in the mRNA decay activator ZFP36L2
(2024)More than 4,000 single nucleotide polymorphisms (SNP) variants have been identified in the human ZFP36L2 gene, however only a few have been studied in the context of protein function. The tandem zinc finger domain of ... -
A tale of captopril detection based on an electrochemical mip sensör
(2024)Amaç: Bu çalışmada antihipertansif bir ilaç olan Kaptoprilin tespitine yönelik moleküler baskılama yöntemi ile hazırlanmış sensörler kullanılarak voltametrik bir yöntem geliştirilmesi amaçlanmıştır. Gereç ve Yöntem: Moleküler ... -
Specific features of epitope-MIPs and whole-protein MIPs as illustrated for AFP and RBD of SARS-CoV-2
(2024)Molecularly imprinted polymer (MIP) nanofilms for alpha-fetoprotein (AFP) and the receptor binding domain (RBD) of the spike protein of SARS-CoV-2 using either a peptide (epitope-MIP) or the whole protein (protein-MIP) as ... -
Effect of various carbon electrodes on MIP-Based sensing proteins using poly(Scopoletin): A case study of ferritin
(2024)Sensitivity in the sub-nanomolar concentration region is required to determine important protein biomarkers, e.g., ferritin. As a prerequisite for high sensitivity, in this paper, the affinity of the functional monomer ... -
Structural properties of rat intestinal fatty acid-binding protein with its dynamics: Insights into intrinsic disorder
(2024)Background: The rat intestinal fatty acid-binding protein (I-FABP) is expressed in the small intestine and is involved in the absorption and transport of dietary fatty acids. It is used as a marker for intestinal injury ... -
Intrinsically disordered proteins by homology modeling and replica exchange molecular dynamics simulations: A case study of amyloid-β42
(2024)Homology modeling emerges as a potent tool unveiling the structural enigma of intrinsically disordered proteins (IDPs), with recent advancements such as AlphaFold2 enhancing the precision of these analyses. The process ... -
Liquid-Liquid Phase Separation Associated with Intrinsically Disordered Proteins: Experimental and Computational Tools
(2024)The phenomenon of Liquid-Liquid Phase Separation (LLPS) serves as a vital mechanism for the spatial organization of biomolecules, significantly influencing the elementary processes within the cellular milieu. Intrinsically ... -
Structures prediction and replica exchange molecular dynamics simulations of α-synuclein: A case study for intrinsically disordered proteins
(2024)In recent years, a variety of three-dimensional structure prediction tools, including AlphaFold2, AlphaFold3, ITASSER, C-I-TASSER, Phyre2, ESMFold, and RoseTTAFold, have been employed in the investigation of intrinsically ... -
Covalent dimerization of interleukin-like epithelial-to-mesenchymal transition (EMT) inducer (ILEI) facilitates EMT, invasion, and late aspects of metastasis
(2017)The interleukin-like epithelial-to-mesenchymal transition (EMT) inducer(ILEI)/FAM3C is a member of the highly homologous FAM3 family andis essential for EMT and metastasis formation. It is upregulated in severalcancers, ... -
Coherent organization in gene regulation a study on six networks
(2016)Structural and dynamical fingerprints of evolutionary optimization in biological networks are still unclear. Here we analyze the dynamics of genetic regulatory networks responsible for the regulation of cell cycle and cell ... -
Intrinsically disordered proteins in various hypotheses on the pathogenesis of Alzheimer’xxs and Parkinson’xxs diseases
(Academic Press, 2019)"Dancing protein clouds: Intrinsically disordered proteins in the norm and pathology" represents a set of selected studies on a variety of research topics related to intrinsically disordered proteins. Topics in this update ... -
From quantum mechanics, classical mechanics, and bioinformatics to artificial intelligence studies in neurodegenerative diseases
(Springer, 2022)The amyloid β-protein is an intrinsically disordered protein that has the potential to assemble into myriad structures, including oligomers and fibrils. These structures are neurotoxic and are thought to initiate a cascade ... -
Chapter 33 - Methods to study the effect of solution variables on the conformational dynamics of intrinsically disordered proteins
(Elsevier Academic Press, 2022)[Özet yok] -
Current stage and future perspectives for homology modeling, molecular dynamics simulations, machine learning with molecular dynamics, and quantum computing for intrinsically disordered proteins and proteins with intrinsically disordered regions
(2024)The structural ensembles of intrinsically disordered proteins (IDPs) and proteins with intrinsically disordered regions (IDRs) cannot be easily characterized using conventional experimental techniques. Computational ... -
Frontotemporal dementia-related V57E mutation impairs mitochondrial function and alters the structural properties of CHCHD10
(2023)The V57E pathological variant of the mitochondrial coiled-coil-helix–coiled-coil-helix domain-containing protein 10 (CHCHD10) plays a role in frontotemporal dementia. The wild-type and V57E mutant CHCHD10 proteins contain ... -
The impacts of the mitochondrial myopathy-associated G58R mutation on the dynamic structural properties of CHCHD10
(2023)The mitochondria are responsible for producing energy within the cell, and in mitochondrial myop-athy, there is a defect in the energy production process. The CHCHD10 gene codes for a protein calledcoiled-coil-helix-coil ... -
Intrinsically disordered synthetic polymers in biomedical applications
(Polymers, 2023)In biology and medicine, intrinsically disordered synthetic polymers bio-mimicking intrinsically disordered proteins, which lack stable three-dimensional structures, possess high structural/conformational flexibility. They ... -
Paving the way for synthetic intrinsically disordered polymers for soft robotics
(2023)Nature is full of examples of processes that, through evolution, have been perfected over the ages to effectively use matter and sustain life. Here, we present our strategies for designing intrinsically disordered smart ... -
Effects of the Jokela type of spinal muscular atrophy-relatedG66V mutation on the structural ensemble characteristics ofCHCHD10
(2023)The G66V pathological variant of the coiled-coil-helix-coiled-coil-helix domain-containing protein 10 (CHCHD10), mitochondrial, plays a role in Jokela type spinalmuscular atrophy. The wild-type and G66V mutant-type CHCHD10 ... -
Intrinsically disordered proteins and proteins with intrinsically disordered regions in neurodegenerative diseases
(Elsevier BV., 2022)Many diferent intrinsically disordered proteins and proteins with intrinsically disordered regions are associated with neurodegenerative diseases. These types of proteins including amyloid-β, tau, α-synuclein, CHCHD2, ...
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