Current Proteomics - Volume 21, Issue 6, 2024

Deep learning represents a sophisticated technological advancement that leverages large-scale datasets and intricate models for feature extraction and pattern recognition, finding extensive application in domains such as computer vision and natural language processing. In recent years, deep learning has exhibited considerable promise in the analysis of complex biological data. The integration of this technology no Read More

Background and Objective The integration of multi-site functional Magnetic Resonance Imaging (fMRI) datasets with deep learning frameworks has yielded substantial advancements in the realm of Autism Spectrum Disorder (ASD) research. However, existing graph convolutional neural networks (GCNs) only aggregate neighbor information at a fixed scale and cannot adjust the scale parameters to aggregate the best inf Read More

BackgroundCoronavirus disease 2019 (COVID-19), which emerged in 2019, has caused millions of deaths worldwide. Although effective vaccines have been developed to mitigate severe symptoms, certain populations, particularly the elderly and those with comorbidities, remain at high risk for severe outcomes and increased mortality. Consequently, early identification of the severity and clinical outcomes of the disease in th Read More

The incidence of Hepatocellular carcinoma (HCC) is rising at an alarming rate. It is now the third leading cause of cancer deaths worldwide. Non-alcoholic fatty liver disease (NAFLD) and its more aggressive form of non-alcoholic steatohepatitis (NASH) are emerging as significant risk factors for liver cirrhosis and HCC. Post-translational modifications in proteins especially glycosylation leading to the synthesis of glycoproteins h Read More

Abiotic 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

Damage-associated molecular Patterns (DAMP) released on the onset of tissue injury interact predominantly with pattern-recognizing receptors (PRRs) and multiple receptors to trigger and mediate inflammation and play a critical role in the progression of various diseases. Among the multiple DAMPs, S100A8 (MRP-8) and S100A9 (MRP-14) are low molecular weight calcium-binding proteins primarily expressed in innate Read More

FUS (fused in sarcoma protein), beta-amyloid, tau, alpha-synuclein, and TDP-43, which are involved in neurodegenerative diseases (NDDs) pathogenesis, are characterized by antiviral properties. These proteins are inhibitors of retroelements, being activated in response to retroelement expression products. This is due to the evolutionary relationship between retroelements and exogenous viruses. During aging, proteinop Read More

The 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

AimsThis 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.BackgroundParasitic protozoa have long been responsible for increasing the burden on healthcare. Ho Read More

BackgroundHantavirus illness is characterized by increased vascular permeability and hemorrhagic fever with renal syndrome or cardiopulmonary syndrome.MethodsIn this study, the domain search approach, a bioinformatics method, was utilized to understand more about hantavirus E protein structures.ResultsActivities of Ca2+ binding domain, C-type lectin, Dockerin, glycosyl hydrolase (cellulase), PI3K, threonine kinase, PTEN, Read More

ObjectiveThis pilot study aimed to analyze serum differential proteins in Vestibular Migraine (VM) group (n=21) and the healthy controls (HC) group (n=21).MethodsSerum samples collected from subjects were analyzed using the relative quantitative proteomics Tandem Mass Tag (TMT) quantification technique for protein identification.ResultsBased on TMT proteomics technology and bioinformatics analysis, we identified Read More

BackgroundPost-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.ObjectivesOn the Read More

BackgroundThe stability of Rho depends on its amino acids, protein structures, oligomerization, strong interactions, salt bridges, and bonding patterns. A single amino acid change can alter the protein's tertiary structure. Rhomboids cut misfolded membranes. They regulate protein synthesis, mitochondrial integrity, parasite invasion, and growth factor secretion. Research into these proteins and their inhibitors can i Read More

BackgroundSepsis 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.AimsThis study aimed to explore the ther Read More

BackgroundBovine 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.ObjectiveThis study aimed to compare the stability of monomeric and dimeric forms of BS-RNase using in silico methods.MethodsThe tertiary structures of BS-RNase as monomers and dimer Read More

BackgroundIdentifying disease-protein associations is a key step in treating disease, understanding pathomechanisms, and developing drugs. Although experimental methods can be used to identify disease-protein associations, they are often time-consuming, laborious, and expensive. Therefore, there is a strong need to develop theoretical computational methods to identify potential disease-protein associations.Objecti Read More

Background and ObjectivesVenomous 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.AimsIn 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

BackgroundMembrane proteins participate in many physiological and biochemical functions essential for cellular function. Identifying membrane protein types is a critical task in biology for studying the tertiary structure of membrane proteins.MethodsIn this paper, a novel classification method is proposed to predict membrane protein types based on the ensemble learning model, fusing protein sequence features and s Read More

IntroductionAcinetobacter 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