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AraMultiOmics: A Platform for Generating Multi-Omics Features for Studying Symbiosis in Arabidopsis thaliana and Arbuscular Mycorrhizal Fungi
By Jee Eun KangAvailable online: 04 February 2025More LessBackground Recent investigation revealed that arbuscular mycorrhizal fungi (AMF) brought major changes in the transcriptome of non-host plant- Arabidopsis thaliana (A. thaliana) within the AM network constructed by the hyphae of AMF connecting multiple plant roots. Although there is enormous omics data available for A. thaliana, most AM-related information has been restricted to transcriptome studies. Objective We Read More
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Network Pharmacology and Computational Approach to Explore the Potential Underlying Mechanism of Centella asiatica in the Treatment of Diabetes Mellitus
Authors: Harshita Singh and Navneeta BharadvajaAvailable online: 28 January 2025More LessBackground Centella asiatica is a tropical medicinal herb traditionally used for the treatment of different diseases, such as arthritis, kidney disease, diabetes mellitus, etc. Diabetes mellitus is emerging as a global health concern, demanding research to provide insights into it. Objective The current research study aimed at employing the Network Pharmacology and Molecular Docking approach to unearth and validate the po Read More
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Elucidation of EhSec1 and Interaction with EhSyntaxin1A /1B of Entamoeba Histolytica via Docking and Molecular Simulations
Available online: 21 January 2025More LessAims This study aims to gain insights into the EhSec1 binding mechanism and the corresponding amino acids responsible for interacting with the amoebic SNARE proteins, EhSyntaxin1A/1B, which would enable to create a platform for further exploration of the functions and applications of EhSec1 in managing amoebiasis. Background Parasitic protozoa have long been responsible for increasing the burden on healthcare. Ho Read More
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A Novel Platform for Protein Post-translational Modifications based on a High-density Antibody Array
Authors: Tao Wang, Wei Li, Jingqiao Lv, Na Li, Peng Zhang, Hao Tang, Lei Jiang, Yanlin Wang, Mike Mao, Shuhong Luo, Hua Dong and Ruo-Pan HuangAvailable online: 21 January 2025More LessBackground Post-Translational Modifications (PTMs) are covalent modifications of amino acids added to proteins that can significantly affect proteins’ structures and functions. PTMS are, therefore, important biomarkers due to their regulation of various bioactivities. Protein array is a robust tool for detecting and quantifying proteins with high throughput, small sample requirement, and high sensitivity. Objectives On th Read More
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Two Novel Peptides from Buthotus saulcyi Scorpion Venom: Proteomic Analysis and Approaches
Authors: Jamil Zargan, Ehsan Jahangirian, Haider A. Khan and Shakir AliAvailable online: 20 January 2025More LessBackground and Objectives Venomous scorpions play a crucial role in medicine and public health. Buthotus saulcyi scorpion is known as one of the most populous species in East Asia and Iran, while its venom proteome has still not been fully determined. Aims In the current research, the proteomic profile of Buthotus saulcyi scorpion venom to determine the structural and functional characteristics of its compounds used f Read More
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Comparison of Structural Stability of Monomeric and Dimeric Forms of Bovine Seminal Ribonuclease Using Molecular Dynamics Simulation
Available online: 16 January 2025More LessBackground Bovine Seminal Ribonuclease (BS-RNase) is a unique member of the RNase A family found in the bovine seminal fluid. It is recognized for its antiviral and antitumor properties, which make it a potential therapeutic agent. Objective This study aimed to compare the stability of monomeric and dimeric forms of BS-RNase using in silico methods. Method The tertiary structures of BS-RNase as monomers and dime Read More
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Proteomics Response of Photosynthetic Machinery to Abiotic Stresses: A Review
Authors: Abhinav Ray and Vijay K. DalalAvailable online: 09 January 2025More LessAbiotic stress, including drought, salinity, extreme temperatures, and light intensity, profoundly affects plant growth and development. Plants being sessile cannot escape the stress conditions,, thus have developed either evading or tolerance mechanisms during evolution. In plants several processes are affected by drought e.g. there is inhibition of growth, reduction in photosynthesis, and yield, and increased membrane da Read More
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An Evolutionary Attributes of OMP33-36 in Acinetobacter baumannii: In silico Based Analysis
Authors: Sukriti Singh, Jyotsna Agarwal, Anupam Das, Mala Trivedi and Manish DwivediAvailable online: 08 January 2025More LessIntroduction Acinetobacter baumannii is a well-known, multidrug-resistant bacteria that poses a serious risk to public health everywhere. The discovery of novel antibacterial drugs has become an urgent need due to the emergence of multi-drug resistance strains and the lack of appropriate antibiotics. To develop effective treatments for A. baumannii infections, this work explores the evolutionary analysis of Outer Read More
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Nanotechnology-Driven Approaches for Targeted Rectal Microbiome Modulation in Gastrointestinal Disorders
By Kiran DudhatAvailable online: 08 January 2025More LessThe gastrointestinal tract hosts a complex ecosystem of microorganisms, with rectum playing a critical role in microbial diversity and health. This manuscript provides a comprehensive overview of rectal microbes, their functions, and the latest technological advancements in studying and manipulating these microorganisms for therapeutic purposes. Key microbial phyla in the rectum include Firmicutes, Bacteroidetes, Actin Read More
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Bioinformatics Method Predicts Hantavirus Disrupts Vascular Permeability to Invade Cells Violently by Fibrocystin Hydrolase and PTEN/Gtpase-Like System
Authors: Wenzhong Liu and Hualan LiAvailable online: 07 January 2025More LessBackground Hantavirus illness is characterized by increased vascular permeability and hemorrhagic fever with renal syndrome or cardiopulmonary syndrome. Methods In this study, the domain search approach, a bioinformatics method, was utilized to understand more about hantavirus E protein structures. Results Activities of Ca2+ binding domain, C-type lectin, Dockerin, glycosyl hydrolase (cellulase), PI3K, threonine kina Read More
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Study on the Role of Human Gut Microbiome in Controlling MRSA-Induced Sepsis Using Proteomics Tool
Authors: Aditi Giriraj, Apoorva Bhat and Sasmita SabatAvailable online: 06 January 2025More LessBackground Sepsis is defined as the extreme response of a body to an infection, leading to untimely death if left untreated. The human gut microbiome is characterized by the presence of several microorganisms in the gastrointestinal tract. This study provides insight into the potential therapeutic effects of a peptide present in the human gut microbiome that helps control sepsis. Aim This study aimed to explore the the Read More
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Agar-Agar Matrix-Mediated Immobilization for Enhanced Catalytic Behavior and Stability of 1,4-α-D-Glucan Glucanohydrolase Obtained from Halotolerant Micrococcus spp. K11
Authors: Ayisha Aman Ullah, Aysha Jamaluddin, Raheela Rahmat Zohra, Ayesha Siddiqui and Suad NaheedAvailable online: 03 January 2025More LessBackground Entrapment is supposed to be the most effective and simple method among various strategies of enzyme immobilization as it preserves the original conformation and biological activity of the enzyme with greater immobilization yield. A suitable and cost-effective protocol for the entrapment of 1,4-α-D-glucan glucanohydrolase obtained from halotolerant Micrococcus spp., K11 has been developed. Objectiv Read More
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Identification of Potential Necroptosis Inhibitors using Pharmacophore Model: An In-silico Approach
Authors: Manisha Pritam, Somenath Dutta and Rajnish KumarAvailable online: 03 January 2025More LessBackground Necrosis, a form of uncontrolled cell death, can be triggered by a variety of stressors, including infection, injury, toxins, and ischemia. Such necrotic events, particularly when induced by pathogenic infections, can lead to severe health complications. The mixed lineage kinase domain-like pseudokinase (MLKL) has been identified as a crucial drug target for mitigating necrosis. Objective The objective of this stud Read More
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Investigating the Effectiveness of Natural Analogs and Different Metabolites of Curcumin for the Inhibition of the Influenza Virus Proteins in a Simulated Environment
Available online: 03 January 2025More LessBackground Curcumin possesses numerous properties, including anti-influenza effects. Various natural analogs and metabolites of curcumin have been identified. Objective To better understand the mechanism of curcumin's anti-influenza effect, the inhibitory effect of natural analogs and secondary metabolites of curcumin on 11 influenza virus proteins was investigated in a simulated environment. Methods Molecular data Read More
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Integrated Analysis of the Proteome Datasets Using the Assembled Genome Sequence Provides New Insights into the Specialization of Shoots, Stolons, and Rhizomes in Bermudagrass (Cynodon dactylon L.)
Authors: Shuai Yuan and Bing ZhangAvailable online: 03 January 2025More LessIntroduction Bermudagrass (Cynodon dactylon L.) simultaneously has three types of stems: shoots, stolons, and rhizomes, which lays the basis for the fast clonal growth of this important warm-season turfgrass species. However, the mechanisms underlying the differentiation, growth, and development of the three types of stems remain unclear. Methods In this study, the annotation information of the assembled bermudag Read More
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In silico Analysis of Maize Spermidine Synthase: Detailed Insights from Substrate Docking Studies
Available online: 03 January 2025More LessIntroduction Polyamines are vital in regulating stress signaling pathways, inhibiting reactive oxygen species, and stabilizing the photosynthetic apparatus in plants, with their levels fluctuating under stress conditions. Among the key enzymes in polyamine biosynthesis is spermidine synthase, which synthesizes spermidine in the presence of putrescine and S-adenosyl 3-(methylsulfanyl) propylamine. Methods This study focused Read More
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In-silico Analysis of Peroxidase from Raphanus Sativus
Authors: Shilpa Saikia, Meera Yadav and Hardeo Singh YadavAvailable online: 03 January 2025More LessBackground In-silico study plays an important role in bioinformatics. It is a fast-expanding field to modelling, predicting and explaining biological activity at the molecular level using computational methods. Peroxidases are heme or non-heme-containing key antioxidant enzyme belonging to the oxidoreductase family. They can bioremediate the different environmental pollutants such as dioxins, petroleum hydrocarbons, synt Read More
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Serum Proteomics Reveals Differential Proteins between Individuals with Vestibular Migraine and Healthy Subjects
Authors: Lixiang Wang, Junhong Liu, Daopei Zhang and Huailiang ZhangAvailable online: 02 January 2025More LessObjective This pilot study aimed to analyze serum differential proteins in Vestibular Migraine (VM) group (n=21) and the healthy controls (HC) group (n=21). Methods Serum samples collected from subjects were analyzed using the relative quantitative proteomics Tandem Mass Tag (TMT) quantification technique for protein identification. Results Based on TMT proteomics technology and bioinformatics analysis, we identifie Read More
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Molecular Mechanisms of Antiproliferative Effects of Safranal on Cervical Cancer: Evidence from Bioinformatics Analysis
Authors: Souandaou Athoumani Ali, Gul Ozcan and Nihal Omur BulanAvailable online: 01 January 2025More LessBackground Saffron (Crocus sativus), also known as Red Gold has shown anticancer activity, but the molecular mechanisms underlying its potential therapeutic effects are not fully understood. Objective This study investigates the anticancer effects of safranal on cervical cancer, one of the most common cancer types in women worldwide and elucidates the molecular mechanism underlying these effects through bioinformatics an Read More
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NaturePred: A Tool for Revolutionizing Natural Product Classification with Artificial Intelligence
Available online: 01 January 2025More LessBackground The identification and classification of natural products are vital in drug discovery and bioactive compound exploration. Traditional methods are laborious and time-consuming, necessitating innovative tools for accurate predictions using advanced AI techniques. Objectives This paper presents NaturePred, a user-friendly tool designed to predict the class of natural products and calculate eight physicochemical pr Read More
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