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Pattern Association Discovery in paired Immunoglobulin Heavy and Light Chains
Science During B cell immune responses, recognition of certain antigenic epitopes may be critically dependent on the immunoglobulin (IG) conformation provided by both the heavy chain (HC) and light chain (LC) genes. However, much of the focus to date has been on the IG HC genes while studies on IG LCs have lagged behind leading…
An informatics probabilistic method for pattern discovery in Immunoglobulin sequences based on amino acid physicochemical properties
Science Molecular processes during the maturation of B cells end up in the production of a vast variety of different immunoglobulins (IG) to ensure the ability of the organism to defend against all possible threats (e.g. pathogens or cancer cells).[1,2] Of particular interest is the complementarity determining region 3 (CDR3) since it is the IG…
Ancestral Reconstruction of clonally related Immunoglobulin sequences
Science Immunogenetic studies offer fundamental insight into the maturation of immune responses. For instance, the analysis of somatic hypermutation (SHM) within the clonotypic immunoglobulin (IG) helps us to better understand the operation of selective forces in the natural history of any particular B cell clone, while also revealing whether antigen interactions are ongoing. From a…
Force-directed Graph method for Somatic Hypermutation association analysis
Science Following antigen stimulation the immunoglobulin (IG) molecule can undergo affinity maturation i.e. a process during which the sequence of the variable domains of the IG is altered. Somatic hypermutation (SHM) is the process responsible for this alteration and results in the preferential expansion of B cells expressing an IG with high affinity for its…
Clustering analysis of Immunoglobulin Sequences based on 3D structural descriptors
Science Immunoglobulins (IG) are crucial for the defense against pathogens, but they are also important tools in many clinical and biotechnological applications. However, the procedure for constructing IG crystals that would help us accurately describe and understand the actual attributes of IGs is extremely laborious and demanding. In this context, the ability to gain insight…
Flow Cytometry Analysis Tool for automated patient classification
Science Flow cytometry (FC) is a powerful methodology in both routine diagnostics and research, offering the opportunity to study distinct cell types under different conditions and assessing a wide range of parameters (e.g. DNA analysis, apoptosis, cell cycle analysis, cell proliferation, cytokine production, viability). A key step in FC analysis is to focus on particular…
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