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183 articles for “Protein-protein interactions”
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A comprehensive study on interactions between protein molecules and their importance in Drug Discovery
Abstract: Protein-protein interactions (PPIs) are extremely specialized chemical and physical interactions that occur when two or more protein molecules come into contact with one another with the help of biochemical processes impacted by interactions between them, such as hydrogen bonding, electrostatic forces, and the hydrogen effect. Many interactions that occur in a specific bimolecular environment within a cell or living creature entail physical contact as well as molecular connections between chains. …
Published in Research & Reviews: A Journal of Drug Formulation, Development and Production · Vol. 10, Issue 3, 2023 · pp. 1–10 Read article
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A Comprehensive Study on Protein-Protein Interaction in Drug Development: Future Prospective and Challenges
Abstract: Protein-protein interactions (PPIs) play important roles in various cellular processes and have become a major area in drug development. Most of the studies which are related to Protein-protein interactions (PPIs) are correlated with different types of diseases including infectious diseases, Cancer and Neurodegenerative disorders. Therefore, targeting PPIs constitutes a therapeutic avenue for disease and an essential strategy for new drug development. In the last 10 years, PPI has been an …
Published in Research & Reviews: A Journal of Drug Design & Discovery · Vol. 10, Issue 2, 2023 · pp. 25–31 Read article
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ALADIN and its Protein Interactions with the Nucleoproteins: An Insilico Analysis
Abstract: The nuclear pore complex (NPCs) are big, protein complexes made up of multiple units that traverse the nuclear envelope (NE), establishing a discerning channel between the cytoplasm and nucleus for the nucleocytoplasmic transport. It has different roles in cellular processes, like cell-cycle progression, control of gene expression, and signal transduction. NPC is a vast and complex structure, compiled from almost 30 proteins, termed nucleoporins. Earlier studies have shown that each …
Published in Research and Reviews : Journal of Computational Biology · Vol. 7, Issue 1, 2018 · pp. 28–31 Read article
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Study on Chemical Insights into Alzheimer's Disease: Amyloid Beta and Tau Protein Interactions
Abstract: Background: Alzheimers disease (AD) is the most prevalent form of dementia, affecting millions of individuals worldwide and posing significant challenges to healthcare systems. The disease is characterized by a gradual decline in cognitive functions, particularly memory, reasoning, and the ability to perform daily activities. Aim & objective: To study chemical insights in alzheimers disease, especially amyloid beta and tau protein interactions Results & discussion: The results of this review highlight …
Published in International Journal of Brain Sciences · Vol. 2, Issue 1, 2025 · pp. 37–46 Read article
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Biological Network Clustering using Distance and Graphical Network Algorithm
Abstract: Clustering is a process of grouping together similar data items together based on certain percentage of similarity or certain amount of threshold value. The study of the protein-protein interaction is an important task as this is necessary in order to identify how the proteins are grouped together and how they interact with each other. This process of studying or identifying the protein-protein interaction so far done anciently is followed by …
Published in Research and Reviews : A Journal of Life Sciences · Vol. 5, Issue 1, 2015 · pp. 6–14 Read article
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The Intersection of Bioinformatics and Cellular Function in Disease Modeling
Abstract: The integration of bioinformatics and cellular biology has revolutionized our understanding of disease mechanisms, offering unprecedented opportunities to model complex biological systems. Bioinformatics is an interdisciplinary field that merges biology, computer science, and statistics, offering advanced tools to analyze vast biological datasets. Cellular functions, including gene expression, protein interactions, and metabolic pathways, form the foundation of physiological and pathological states. Disruptions in these processes can result in diseases like cancer, …
Published in International Journal of Cell Biology and Cellular Functions · Vol. 2, Issue 2, 2024 · pp. 1–7 Read article
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Computational Biomodeling: Transforming Drug Design with Advanced Simulations
Abstract: Computational biomodeling has emerged as a transformative approach in the field of drug discovery, significantly enhancing the efficiency and precision of identifying and optimizing potential drug candidates. This article explores the various computational techniques utilized in drug design, including molecular docking, molecular dynamics (MD) simulations, free energy calculations, and virtual screening, and examines how these methods collectively contribute to the drug development process. The integration of these advanced simulations allows …
Published in Research and Reviews : Journal of Computational Biology · Vol. 13, Issue 3, 2024 · pp. 24–29 Read article
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Integrative Network Biology Analysis of GSE6011 Uncovers Molecular Signatures in Duchenne Muscular Dystrophy
Abstract: Duchenne muscular dystrophy (DMD) is a rare, severe neuromuscular disorder demonstrated by progressive skeletal muscle deterioration and premature mortality. Despite advances in supportive care, no definitive cure exists, highlighting the need to explore novel molecular targets. The current study aimed to uncover key dysregulated genes and molecular pathways in DMD through a dataset-specific network biology approach. Publicly available microarray data (GSE6011) from DMD quadriceps muscle biopsies of 22 patients and …
Published in Research and Reviews : Journal of Computational Biology · Vol. 14, Issue 3, 2025 · pp. 36–48 Read article
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Identification of Hub Genes and Enriched Gene Ontology & Pathways in Idiopathic Pulmonary Fibrosis Through Bioinformatics Approaches
Abstract: Idiopathic Pulmonary Fibrosis (IPF) is a progressive interstitial lung disease marked by aberrant remodeling of lung tissue and excessive extracellular matrix deposition, ultimately leading to respiratory failure. Despite ongoing research, the molecular mechanisms underlying IPF remain incompletely understood. This research aims to uncover differentially expressed genes (DEGs) and related biological pathways through an integrated analysis of microarray data. Two publicly available datasets, GSE110147 and GSE53845, were obtained from the Gene …
Published in Research & Reviews: A Journal of Bioinformatics · Vol. 13, Issue 1, 2026 · pp. 1–13 Read article
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Modulation of Receptor Proteins: A Recent Paradigm in Drug Discovery and Target
Abstract: The main aim in drug discovery is to design different ligands those work on specific drug targets. However, various effective drugs work through the modulation of many proteins than single target. Advancement in system biology are establishing a phenotypic strength and a network structure, which suggests that, the excellent selective compounds may be performed less than desired clinical efficacy in comparison to multi-target drugs. In this new appreciation of the …
Published in Research & Reviews: A Journal of Drug Design & Discovery · Vol. 5, Issue 1, 2018 · pp. 14–24 Read article
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Interaction of Sweet Proteins with Human Sweet Taste Receptor
Abstract: There is a dearth of low calorie sweeteners with minimal or no side effects. Natural molecules are obvious choice for they are expected to be easily metabolized. Despite the availability of natural sweet proteins like brazzein, monellin, thatumatin, etc., they are not suitable for hyperlipidemia patients. That necessitates the design of new peptide-based sweeteners. The present work attempts to understand the interaction of sweet proteins with human sweet taste receptor …
Published in Research and Reviews: A Journal of Pharmaceutical Science · Vol. 4, Issue 1, 2013 · pp. 25–30 Read article
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Insilico Study Showing the Chemical Properties and Interaction between Auxin-Binding Protein and Auxin-Responsive GH3-8 Protein in Rice
Abstract: Auxin plays an important role in the plant growth. There are different auxin binding and auxin responsive proteins which bind and interact with auxin hormone and helps for plant development. Two different rice proteins considered for study, one protein binding to auxin and another is the auxin responsive protein. The Nuclear magnetic resonance (NMR) crystallographic structures of both the proteins are not available at Protein Data Bank (PDB). So the …
Published in Research & Reviews: A Journal of Bioinformatics · Vol. 1, Issue 3, 2014 · pp. 24–30 Read article
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Interaction of Bioactive Component of Aframomum melegueta on Molecular Docking
Abstract: Computational mimicry of the structure of large complexes created by di- and poly-interaction of molecules has been termed molecular docking. The purpose of molecular docking is the prediction of the three-dimensional structures of interest, this is due to that docking only produces plausible candidate structures. The docking was carried out between the bioactive compounds against 5α-reductase, 3β-hydroxy-steroid dehydrogenase, and 17β-hydroxy-steroid dehydrogenase of returned binding energy, BE (kcal/mol) between -5.9 and …
Published in International Journal of Biochemistry and Biomolecule Research · Vol. 2, Issue 1, 2024 · pp. 51–60 Read article
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In Silico Identification of Therapeutic Agents for Dengue Virus by Molecular Docking
Abstract: The dengue virus causes serious health issues and a loss of quality of life. Dengue poses a yearly threat to half of the world’s population. The drugs that are based on allopathy are expensive and also exhibit toxic effects on tissues and biological activities. It is also generally accepted that most pharmacologically active drugs, including those derived from medicinal plants, are isolated from natural sources. The present study is directed …
Published in Research & Reviews: A Journal of Drug Design & Discovery · Vol. 13, Issue 2, 2026 · pp. 01–14 Read article
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Exploring the Role of MAPK3 in Major Depressive Disorder: Molecular Docking, Dynamics, and Binding Free Energy Analysis of Natural Compounds as Alternatives to Conventional Drugs
Abstract: Major Depressive Disorder (MDD) is a prevalent neuropsychiatric disorder with limited treatment efficacy and significant side effects associated with conventional antidepressants. Recent studies have highlighted the role of mitogen-activated protein kinase 3 (MAPK3) in the mechanisms underlying MDD, positioning it as a potential target for the development of novel therapeutic drugs. In this study, we employed various computational approaches to explore natural compounds as viable alternatives to synthetic antidepressants. Researchers …
Published in International Journal of Bioinformatics and Computational Biology · Vol. 3, Issue 2, 2025 · pp. 53–68 Read article
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Prediction of Molecular Targets for Anthraquinone and Its Analogs for Treatment of Good Pasteur Syndrome
Abstract: Objective: In order to find prospective molecular targets for the treatment of Good Pasteur Syndrome (GPS), a rare autoimmune disease that affects the kidneys and other organs, computational methods and network pharmacology were applied in this work. The goal of the study is to identify particular human proteins that might interact with anthraquinone and its analogues as well as to uncover potential mechanisms of action by which these drugs might …
Published in International Journal of Bioinformatics and Computational Biology · pp. 10–27 Read article
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Network Pharmacological Studies in Biological Interactions of Thymoquinone
Abstract: Thymoquinone, a bioactive phytochemical compound belonging to the class of benzoquinones, is prominently present in the plant Nigella sativa. Despite its widespread use, the precise molecular mechanisms underlying its beneficial effects remain elusive. To address this gap, we employed network pharmacology to investigate the actions of Thymoquinone (TQ). Our methodology encompassed the utilization of diverse bioinformatic tools to scrutinize this molecule of interest comprehensively. Initially, we retrieved the chemical structure, …
Published in Research and Reviews : Journal of Crop science and Technology · Vol. 12, Issue 3, 2023 · pp. 18–25 Read article
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Grid based docking study of some 2-(4-methylsulfonyl phenyl) pyrimidine derivatives (designed after QSAR studies) with Cyclooxygenase
Abstract: Molecular docking helps in studying drug/ligand or receptor/ protein interactions by identifying the suitable active sites in protein, obtaining the best geometry of ligand-receptor complex and calculating the energy of interaction for different ligands to design more effective ligands. In Grid based docking, after unique conformers of the ligand are generated, the receptor cavity of interest is chosen and a grid is generated around the cavity. Cavity points are found …
Published in International Journal of Antibiotics · Vol. 1, Issue 1, 2024 · pp. 23–41 Read article
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Production, Estimation and Protein Network Studies of Bioethanol Fermented Media from Maduca Longifolia Produced by Surface Fermentation using Candida Albicans
Abstract: Candida albicans is a fungus that is used as industrially important species in fermentation productions from past several decades. In the present experimentation, Madhuca longifolia dried flowers with Candida albicans, Saccharomyces cerevisiae, and Pseudomonas aeruginosa respectively are used as cultures and was analyzed for bioethanol production. Bioethanol produced in M. longifolia+yeast with about 40% was more compared with other samples. M. longifolia+ Pseudomonas showed 20% ethanol, M. longifolia+ candida 14% …
Published in Research and Reviews : Journal of Computational Biology · Vol. 7, Issue 1, 2018 · pp. 9–14 Read article
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Deciphering Th-Related Gene Interactions in Chronic Spontaneous Urticaria: Bioinformatics Insights and Drug Affinity Exploration
Abstract: Objective: There has been a great deal of interest in how inflammatory dermatosis and The cell interact, but the etiopathogenesis of chronic spontaneous urticaria (CSU) is still inadequately comprehended. Through bioinformatics techniques, the purpose of this work is to elucdate the molecular mechanism underlying Th-related genes in CSU and seeks to find the highest affinity drug. Methods: The CSU RNA expression profiling dataset provided the basis for the investigation. The …
Published in International Journal of Genetic Modifications and Recombinations · Vol. 2, Issue 1, 2024 · pp. 1–15 Read article