81 Result(s)
within
Biomedicine
Immunology
Ke** Zhang
Protocol
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Protocol
In Silico: Predicting Intrinsic Features of HLA Class-I Restricted Neoantigens
Mutation-containing immunogenic peptides from tumor cells, also named as neoantigens, have various amino acid descriptors and physical-chemical properties characterized intrinsic features, which are useful in ...
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Designing High Binding Affinity Peptides for MHC Class I Using MAM: An In Silico Approach
The availability of extensive MHC-peptide binding data has boosted machine learning-based approaches for predicting binding affinity and identifying binding motifs. These computational tools leverage the wealt...
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Wolbachia Transinfection Via Embryonic Microinjection
The process of transferring Wolbachia from one species to another to establish a stable, maternally inherited infection in the target species is known as transinfection. The success of transinfection is primarily...
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A Robust In Vitro Co-culture Model for Studying the Intercellular Communication of Neutrophils
Communication among neutrophils plays critical roles during various phases of inflammatory responses, with clinical relevance to both acute and chronic inflammatory diseases. Despite its significance, underlyi...
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Isolation and Culture of Mouse Primary Microglia and Oligodendrocyte Precursor Cells
Microglia and oligodendrocyte precursor cells (OPCs) are critical glia subsets in the central nervous system (CNS) and are actively engaged in a body of diseases, such as stroke, Alzheimer’s disease, multiple ...
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Endothelial Mitochondria-Associated Membranes (MAMs) Isolation by Percoll Step Gradients
Mitochondria-associated membranes (MAMs) are regions where the endoplasmic reticulum (ER) interacts with mitochondria and regulate lipid trafficking, calcium signaling, ER stress, and inflammation activation. ...
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T Cell Subsets and Immune Homeostasis
T cells are a heterogeneous group of cells that can be classified into different subtypes according to different classification methods. The body’s immune system has a highly complex and effective regulatory n...
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Delineating the Role of Toll-Like Receptors in Inflammatory Bowel Disease
recognize altered gut microbiota triggering an immune response. These responses play a critical role in the pathogenesis and treatment of inflammatory bowel disease (IBD). IBD is characterized by inflammation...
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Mouse Models of Phaeohyphomycosis
Infections by dematiaceous fungi especially phaeohyphomycosis are an emerging group of infectious diseases worldwide with a variety of clinical presentations. The mouse model is a useful tool for studying phae...
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Quantifying the Mechanical Properties of Yeast Candida albicans Using Atomic Force Microscopy-based Force Spectroscopy
Fungi can adapt to a wide range of environmental stresses in the wild and host milieu by employing their plastic genome and great diversity in morphology. Among different adaptive strategies, mechanical stimul...
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Native Deglycosylation and Size Exclusion Chromatography of Viral Chemokine Binding Proteins for Structural Discovery
Structural discovery of viral chemokine binding proteins can provide valuable information on the binding domains and protein–protein interfaces (PPI) of these immunologically relevant proteins. Protein express...
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Mouse Corneal Transplantation
Corneal transplantation is the most common form of organ transplantation worldwide. Transplant survival depends on various factors, many of which are not fully understood. Due to the existence of many genetica...
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Mouse Models of Renal Allograft Transplant Rejection: Methods to Investigate Chemokine–GAG Interaction and Therapeutic Blockade
Chemokine–glycosaminoglycan (GAG) interactions direct immune cell activation and invasion, e.g., directing immune cells to sites of infection or injury, and are central to initiating immune responses. Acute in...
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Zebrafish: A Tractable Model for Analysis of T Cell Development
While the zebrafish has for some time been regarded as a powerful model organism with which to study early events in hematopoiesis, recent evidence suggests that it also ideal for unraveling the molecular requ...
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Mouse Models to Study Secondary Cancer Prevention
Secondary prevention is a set of procedures involved in discovering early recurrence, local or systemic metastasis before the clinical signs or symptoms. We describe a mouse model with orthotopic pancreatic tu...
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A Bioinformatic Framework for Dissecting the Dynamics of T Cells from Single-Cell Transcriptome
The quantitative tracking of the dynamics of T cells is challenging in human immunology. Although bulk sequencing of T cell receptor (TCR) α- and β-chains has been widely used for determining the clonality of ...
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CRISPR-Cas9 Editing of the Plasmodium falciparum Genome: Special Applications
The virulence of Plasmodium falciparum has been attributed in large part to the expression on the surface of infected red blood cells of the variant surface antigen Plasmodium falciparum erythrocyte membrane prot...
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Inflammasome-Derived Exosomes Isolation and Imaging by Transmission Electron Microscopy
Exosomes are secreted small vesicles with diameters of 30–150 nm from cells. These vesicles transfer protein, mRNA, and miRNA to recipient cells to mediate many biological processes, including tumorigenesis, m...
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Intracellular Potassium Ion Measurements by Inductively Coupled Plasma Optical Emission Spectrometer (ICP-OES)
Potassium ion (K+) efflux is often considered as an upstream signaling event of NLRP3 activation. The main evidence to demonstrate the importance of K+ efflux is that high concentration of extracellular K+ inhibi...
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Tetramer-Associated T Cell Receptor Sequencing
Linking antigen specificity to T cell receptor (TCR) sequences is critical, albeit challenging, to both understanding T cell biology and develo** T cell-based therapeutics. Here, we describe in detail tetram...
