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30 articles for “Protein Network”
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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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Arabidopsis thaliana. (L.) Heynh Multifunctional Sensor Proteins and Signaling Networks Plant Photoreceptors
Abstract: Light is a crucial environmental cue for the growth and development of plants as well as the production of photosynthetic energy. In order to recognize and process information from incoming light, plants employ sophisticated mechanisms. With the model plant Arabidopsis thaliana, five different types of photoreceptors have been found. (L.) Heynh Photoreceptors play a specialized and/or recurring role in fine-tuning many aspects of the plant's life cycle. Unlike mobile animals, …
Published in International Journal of Photochemistry and Photochemical Research · Vol. 1, Issue 2, 2023 · pp. 08–24 Read article
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Introduction to Biological Networks and their Contributions to Systems Biology
Abstract: Biological networks provide a conceptual framework to represent and analyze the intricate interconnections among the numerous components that make up living systems. This review paper elucidates the foundational principles of networks and their diverse applications in systems biology, highlighting their crucial role in understanding the inherent complexity of biological processes. Utilizing graph theory, these networks represent entities like genes, proteins, and metabolites as nodes, with their interactions depicted as edges. …
Published in International Journal of Bioinformatics and Computational Biology · Vol. 2, Issue 1, 2024 · pp. 53–70 Read article
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Advancements in Drug Design Technology and Its Impact on COVID-19 Treatment
Abstract: The deadly coronavirus disease 19 (COVID-19) pandemic has recently spread, raising concerns about global health. The search for novel therapeutic compounds is made more necessary by the persistent problem of the absence of licensed medications or vaccinations. By saving money and time, computer-aided drug design has sped up the process of finding and developing new drugs. The structured-based and ligand-based drug discovery subcategories of computer-aided drug design (CADD) are the …
Published in International Journal of Virus Studies · Vol. 1, Issue 1, 2024 · pp. 1–15 Read article
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Nutrition Induced Remodeling Dynamics of Cell Membranes: Implications for Performance, Health, and Welfare Issues in Food Animals
Abstract: Cell membranes represent dynamic structural and functional platforms that integrate nutritional signals with cellular metabolism, immune competence, and physiological adaptation in food animals. Beyond their classical role as selective barriers, membranes actively regulate nutrient transport, signal transduction, and bioenergetics through highly responsive lipid and protein networks. Dietary components, particularly fatty acids, vitamins, minerals, amino acids, and bioactive compounds, critically influence membrane composition, fluidity, and stability, thereby shaping cellular function and …
Published in International Journal of Membranes · Vol. 3, Issue 1, 2026 · pp. 25–37 Read article
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Polymer Chemistry in Nutraceutical Composites: Exploring Natural Polymers and Binding Systems in a Bamboo-Enhanced Formulation
Abstract: Polymer chemistry underpins the development of advanced nutraceutical composites, blending natural polymers with functional ingredients for health benefits. This study examines a novel nutraceutical formulation comprising ragi (16.39 g/100g), wheat (12.29 g/100g), soybean (12.29 g/100g), buffalo milk (16.39 g/100g), buffalo butter (4.13 g/100g), bamboo extract (0.90 g/100g), and auxiliary components (37.61 g/100g, including fats, sugars, and proteins). Natural polymers—proteins from soybean and milk, polysaccharides from ragi and wheat—form a macromolecular …
Published in Journal of Polymer & Composites · Vol. 13, Issue 6, 2025 · pp. 878–884 Read article
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Integrating Network Pharmacology and Molecular Docking to Investigate Boerhavia diffusa for Pancreatic Cancer Treatment
Abstract: Objective: In this study, network pharmacology was applied to determine the therapeutic effects of the bioactive compounds of Boerhavia diffusa. Network pharmacology can unearth the underlying mechanisms between drugs and the disease targets and aids in the discovery of novel medications for complex conditions such as cancer. Methods: To predict the molecular mechanisms of action of Boerhavia diffusa in the treatment of was screened using the GeneCards database. The Venn …
Published in International Journal of Molecular Biotechnological Research · Vol. 2, Issue 1, 2024 · pp. 29–49 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 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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Neuro-Symbolic Agentic AI for Autonomous Scientific Discovery: Integrating Deep Reinforcement Learning, Quantum Simulation, and XAI-Audited LLM Hypothesis Generation in Drug Target Identification
Abstract: The exponential growth of multi-omics data and the increasing complexity of disease-associated protein interactomes have rendered conventional drug target identification pipelines computationally and epistemologically inadequate. This paper presents the Neuro-Symbolic Agentic AI for Scientific Discovery (NS-AASD) framework, a unified architecture that cohesively integrates deep reinforcement learning (DRL) exploration strategies, variational quantum simulation (VQS) of protein conformational dynamics, and XAI-audited large language model (LLM) hypothesis generation within an autonomous scientific discovery …
Published in Research and Reviews : Journal of Computational Biology · Vol. 15, Issue 2, 2026 · pp. 15–24 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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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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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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Experimental Studies and in silico Analysis on Quarum Sensing and System Simulation in Pseudomonas aeruginosa
Abstract: Pseudomonas aeruginosa is the most common pathogenic bacterium present in human microbial flora, biofilms, soil and water associated and support self microbial communications and survilance. The present study shows estimated protein concentration present in two days grown in Mullar hinton broth was resulted around 32.5 mg/ml. The studies in protein interaction on X-ray film with aqueous fruit and vegetable extracts showed good results with apple, straw berry, cucumber, grape, orrange, …
Published in Research and Reviews : Journal of Computational Biology · Vol. 7, Issue 1, 2018 · pp. 1–8 Read article
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DRUG INDUCED IMMUNE MEDIATED NEPHRITIS: MOLECULAR MECHANISM , PATHWAYS AND CLINICAL IMPLICATIONS
Abstract: Drug-induced immune-mediated nephritis (DI-IMN) has become a more widely known cause of acute kidney injury (AKI), with the potential for development to chronic kidney disease if not detected and treated promptly. T-cell hypersensitivity to pharmaceuticals, such as antibiotics, proton pump inhibitors, nonsteroidal anti-inflammatory drugs, and immunological drugs, are the major causes for it. Beyond clinical burden, DI-IMN reflectsintricate molecular interactions that sustain interstitial inflammation and tubular injury. These interactions include …
Published in International Journal of Toxins and Toxics · Vol. 3, Issue 1, 2026 · pp. 13–29 Read article
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Nutrient Sensing and Microbiota Crosstalk: Driving Determinants Shaping Metabolic Stability and Adaptive Physiology for Animal Health
Abstract: Nutrient sensing is a fundamental cellular process that enables animals to adapt to fluctuating dietary inputs while maintaining metabolic homeostasis and health. Recent advances reveal that the gut microbiota functions as an active metabolic partner, producing bioactive metabolites that directly influence host nutrient-sensing pathways and downstream cellular responses. This review synthesizes current knowledge on the integration of key signalling networks, including adenosine monophosphate activated protein kinase (AMPK), mechanistic target of …
Published in International Journal of Molecular Biotechnological Research · Vol. 4, Issue 2, 2026 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
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Network Pharmacology and Molecular Docking Approach to Reveal the Underlying Mechanisms of Isorhamnetin in the Treatment of Lymphangitis Carcinomatosis
Abstract: Objective: Lymphangitic carcinomatosis (LC) is a tumor that spreads through lung lymphatics and is most commonly seen secondary to adenocarcinoma. In the majority of cases, LC is a result of tumor cells spreading through the lymphatic system. However, approximately 20% of LC cases can be attributed to lymphangitis caused by tumors obstructing lymphatic drainage. This blockage commonly occurs near the lung hilum, where a centrally located mass can cause inflammation …
Published in International Journal of Bioinformatics and Computational Biology · Vol. 1, Issue 1, 2023 · pp. 28–45 Read article
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Recombinant Proteins and Nested Gene Regulation: Nutrient Driven Immune Response and Disease Resistance in Livestock
Abstract: Livestock production systems are increasingly challenged by infectious diseases, metabolic disorders, and environmental stressors that reduce productivity and compromise animal health. Advances in molecular biology and animal nutrition now offer new opportunities to strengthen disease resistance through integrated strategies that combine recombinant protein technologies, gene regulatory mechanisms, and nutrient mediated immune modulation. This review examines how recombinant proteins and nested gene regulation interact to shape nutrient driven immune responses in …
Published in Research and Reviews : A Journal of Biotechnology · Vol. 16, Issue 1, 2026 · pp. 84–97 Read article
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Alcohol, Circadian Glymphatic Dysfunction, and Neurodegenerative Protein Accumulation: An Emerging Concern in the Indian Context
Abstract: Alcohol consumption has long been identified as a major public health issue, yet its deeper and more subtle effects on the human brain are only now coming into sharper focus. Traditional explanations often emphasize direct neuronal damage, but emerging research in neuroscience suggests a more intricate story. Recent findings indicate that alcohol not only harms brain cells but also disrupts the body’s internal biological clock—the circadian rhythm—which plays a critical …
Published in International Journal of Brain Sciences · Vol. 3, Issue 1, 2026 · pp. 1–4 Read article