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Bioinformatics and Biology Insights
Scopus
ISSN 1177-9322 · SAGE Publishing · 821 articles in the index
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Journal Article
Integrative Bioinformatics Analysis Reveals Convergent Immune Dysregulation in Th17 Cell Differentiation and JAK-STAT Signaling Pathways in Cytomegalovirus Infection and Guillain-Barré Syndrome
Guillain-Barré Syndrome (GBS) is a post-infectious autoimmune neuropathy and the leading cause of acute flaccid paralysis worldwide, frequently triggered by preceding infections including Campylobacter jejuni and cytomegalovirus (CMV). Unlike C. jejuni -associated GBS, the immunopathogenic…
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Journal Article
Integrative Multi-Omics and Structure-based Analysis of DHODH Reveals its Therapeutic Potential in Colorectal Cancer
Dihydroorotate dehydrogenase (DHODH) is a mitochondrial enzyme involved in de novo pyrimidine biosynthesis and has emerged as a potential target in cancer metabolism and therapy. This study integrated transcriptomic analysis with structure-based drug discovery to investigate the biological…
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Journal Article
Hidden in the Pangenome? Machine Learning-Driven Discovery of Antimicrobial Potential in
Antimicrobial resistance poses an increasing global challenge, driving the urgent need for alternative strategies to identify novel therapeutic agents. Microbial natural products encoded by biosynthetic gene clusters (BGCs) remain among the most promising sources of bioactive compounds. Although…
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Journal Article
Design and Analysis of Engineered Proteins Containing Multi-Epitope and Immunodominant Domains Derived From ntigens
Epidemic louse-borne typhus caused by Rickettsia prowazekii and transmitted by the human body louse, remains a major public health threat in many developing regions. Historical records indicate that outbreaks have resulted in up to million cases annually, with mortality ranging from thousands to…
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Journal Article
Chemoinformatic Approaches to Identify Bioactive Inhibitors Against Type I Dehydroquinase (DHQ1) Enzyme of Typhoidal
The incidence of antibiotic resistance is critically jeopardizing the public health of the new millennium, affecting both clinical and therapeutic outcomes. Typhoid perforation in low- and middle-income countries (LMICs) is mostly caused by Salmonella typhi . The development of antibacterial…
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Journal Article
Web-Based Graphical User Interface Design Integrating MATLAB Server for the Mathematical Model of Human Cardiovascular-Respiratory System
A mathematical model of the human cardiovascular-respiratory system is proposed in several MATLAB graphical user interface (GUI) designs. However, it is observed that the latter are not web-based designed, making it hard for users to use them anywhere. This article proposes a web-based GUI design…
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Journal Article
A Novel Bioinformatics Pipeline and a Machine-Learning Approach for Antimicrobial Resistance Phenotypic Prediction
Overuse of antimicrobial drugs is known to cause an increase in bacterial resistance among surviving pathogens, reducing the effectiveness of future treatments. Publicly available sequencing collections, such as the National Center for Biotechnology Information Sequence Read Archive (SRA), allow…
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Journal Article
Listeria Genome Identification Using DNABERT Embedding With LightGBM and SHAP-Based Explainable Classification
Prompt and accurate identification of Listeria monocytogenes at the whole-genome level is essential for food safety surveillance and outbreak prevention, yet existing culture-based, PCR, and next-generation sequencing (NGS) workflows are either slow, labor-intensive, or rely on opaque machine…
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Journal Article
Identification of Key Genes and Repurposable Drugs for Triple-Negative Breast Cancer
Triple-negative breast cancer (TNBC) is a highly aggressive and treatment-resistant subtype, lacking HER2, progesterone, and estrogen receptors. Systemic chemotherapy remains the primary treatment due to the absence of molecular targets, often leading to poor prognosis and high recurrence. This…
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Journal Article
Novel Pyrazoline Derivatives as Therapeutic Candidate for Alzheimer’s Disease: An Integrated Network Pharmacology and 3D-QSAR Modelling
Alzheimer’s disease (AD) is a complex neurodegenerative condition marked by amyloid-β accumulation, tau pathology, and neuroinflammation, while current single-target therapies largely provide symptomatic relief without effectively halting disease progression. Therefore, the rational design and…
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Journal Article
Identification of Key Genes and Pathways in Parkinson’s Disease Through Bioinformatics Analysis
Parkinson’s disease (PD), the second most common neurodegenerative disorder, involves nigral dopaminergic neuron loss. Integrative transcriptomics of central and peripheral tissues may uncover conserved molecular signatures, biomarkers, and therapeutic targets. Gene expression datasets from…
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Journal Article
Unravelling Ferroptosis in Sepsis: A Comprehensive Integrative Transcriptomic Analysis Across Age and Disease Severity
Ferroptosis, an iron-dependent, regulated form of cell death, has been increasingly recognised as a pivotal driver of organ dysfunction and mortality in sepsis. Despite its importance, the transcriptomic regulation of ferroptosis in human sepsis has not been systematically characterised. Here, we…
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Journal Article
Tear MicroRNA-Based Molecular Signature for Keratoconus Stratification: A Cross-Cohort Integration Study
Keratoconus (KC) is a progressive corneal ectatic disorder characterized by structural remodeling and immune-associated molecular alterations. However, whether tear-derived microRNAs reflect corneal molecular changes remains unclear. We analyzed three publicly available corneal transcriptomic…
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Journal Article
ArchetypeShift: An R Package Integrating KEGG-Informed Pathway Analysis and IPA-Derived Functional Predictions for Validation of Single-Cell Archetypes
Functional archetype analysis of single-cell RNA-sequencing (scRNA-seq) data is important because clustering of cell types is often nuanced and inexact. Intermediate phenotypes exist that are difficult to account for in these analyses, particularly in the setting of infant development. Further…
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Journal Article
A Comprehensive In-Silico Pipeline for the Discovery of Non-toxic, Stable Antimicrobial Peptides From Databases for Targeting Multi-Drug Resistant
The rapid emergence of multidrug-resistant Klebsiella pneumoniae has significantly reduced the effectiveness of conventional antibiotics, highlighting the need for alternative therapeutic strategies. This study employed a comprehensive in silico pipeline to identify antimicrobial peptides (AMPs)…
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Journal Article
Genomic Insights Into Strain JSd1 From Bangladesh: A Whole Genome Sequencing Approach
Bacillus thuringiensis (Bt) is a well-known entomopathogenic bacterium widely used in biopesticide formulations due to its diverse arsenal of insecticidal toxins and environmental adaptability. However, the genetic diversity and virulence potential of native Bt strains from South Asia remain…
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Journal Article
De Novo Molecular Design and Bioactivity Prediction of Novel Hexahydroquinolines as Calcium-Dependent Protein Kinase 4 (CDPK4) Inhibitors
Plasmodium falciparum Calcium-Dependent Protein Kinase 4 ( Pf CDPK4) is a validated target for malaria transmission-blocking interventions, as its inhibition disrupts male gametocyte exflagellation. Hexahydroquinolines (HHQs) have emerged as promising gametocytocidal agents. This study aimed to…
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Journal Article
Stromal ARHGEF15 Correlates With Inflammatory EMT and Stromal-Immune Crosstalk During Inflammatory Bowel Disease-To-Colorectal Cancer Progression
Patients with inflammatory bowel disease (IBD) have an increased risk of colorectal cancer (CRC), but how chronic intestinal inflammation drives malignant transformation remains unclear. We retrospectively reanalyzed published single-cell transcriptomic datasets from intestinal biopsies of healthy…
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Journal Article
In Silico Identification of Natural-Product Aromatase (CYP19A1) Inhibitors via Integrated Molecular Docking and QSAR Modelling
Aromatase (CYP19A1) is the rate-limiting enzyme in estrogen biosynthesis and the principal therapeutic target for estrogen receptor-positive (ER+) breast cancer. Despite the clinical success of third-generation aromatase inhibitors (AIs) such as letrozole and anastrozole, acquired resistance and…
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Journal Article
Integrated in Silico and in Vitro Bioactivity Profiling of Selected South African Plant Constituents Against Carbohydrate-Metabolizing Enzymes for Type 2 Diabetes Therapy
The increasing global burden of Type 2 diabetes mellitus (T2DM) and the side effects of conventional drugs have driven the search for natural therapeutic alternatives. This study investigates the antidiabetic potential of South African essential oils — specifically Artemisia afra, Agathosma…