Validation of a double-color ELISpot assay of IFN- γ and IL-4 production in human peripheral blood mononuclear cells
J Immunol Methods. 2023 Nov 29:113588. doi: 10.1016/j.jim.2023.113588. Online ahead of print.ABSTRACTThe Enzyme-Linked ImmunoSpot (ELISpot) assay detects cytokines secreted during T cell-specific immune responses against pathogens. As this assay has acquired importance in the clinical setting, standard bioanalytical evaluation of this method is required. Here, we describe a formal bioanalytical validation of a double-color ELISpot assay for the evaluation of IFN-γ and IL-4 released by T helper 1 and T helper 2 cells, respectively. As recommended by international guidelines, the parameters assessed were: range and detectio...
Source: Journal of Immunological Methods - December 1, 2023 Category: Allergy & Immunology Authors: Francesca Dapporto Domiziana De Tommaso Camilla Marrocco Pietro Piu Claudia Semplici Giulia Fantoni Ilaria Ferrigno Giulia Piccini Martina Monti Francesca Vanni Ilaria Razzano Ilaria Manini Emanuele Montomoli Alessandro Manenti Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Yclon: Ultrafast clustering of B cell clones from high-throughput immunoglobulin repertoire sequencing data
J Immunol Methods. 2023 Oct 30;523:113576. doi: 10.1016/j.jim.2023.113576. Online ahead of print.ABSTRACTMOTIVATION: The next-generation sequencing technologies have transformed our understanding of immunoglobulin (Ig) profiles in various immune states. Clonotyping, which groups Ig sequences into B cell clones, is crucial in investigating the diversity of repertoires and changes in antigen exposure. Despite its importance, there is no widely accepted method for clonotyping, and existing methods are computationally intensive for large sequencing datasets.RESULTS: To address this challenge, we introduce YClon, a fast and eff...
Source: Journal of Immunological Methods - November 15, 2023 Category: Allergy & Immunology Authors: Jo ão Gervásio Alice Ferreira Liza F Felicori Source Type: research
Development of a proficiency testing program for HPV serology assays used to evaluate antibody responses in vaccine trials
In this study, a proficiency panel was created for evaluation of assay performance and inter- and intra-laboratory assay comparisons, especially the ability to accurately measure negative, low, intermediate, and high levels of HPV type-specific antibodies. Comprised of 80 deidentified samples, this panel is designed for individual labs to evaluate assay performance characteristics on a biennial basis, to promote standardization of methodology and harmonization of data from human papillomavirus (HPV) serology tests in vaccine trials. The proficiency panel was qualified using 2 types of assays (singleplex Enzyme-Linked Immun...
Source: Journal of Immunological Methods - November 10, 2023 Category: Allergy & Immunology Authors: Cheryl Miller Troy J Kemp Ligia A Pinto Source Type: research
Development of a proficiency testing program for HPV serology assays used to evaluate antibody responses in vaccine trials
In this study, a proficiency panel was created for evaluation of assay performance and inter- and intra-laboratory assay comparisons, especially the ability to accurately measure negative, low, intermediate, and high levels of HPV type-specific antibodies. Comprised of 80 deidentified samples, this panel is designed for individual labs to evaluate assay performance characteristics on a biennial basis, to promote standardization of methodology and harmonization of data from human papillomavirus (HPV) serology tests in vaccine trials. The proficiency panel was qualified using 2 types of assays (singleplex Enzyme-Linked Immun...
Source: Journal of Immunological Methods - November 10, 2023 Category: Allergy & Immunology Authors: Cheryl Miller Troy J Kemp Ligia A Pinto Source Type: research
