Cargando…

EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data

Antibodies are critical effector molecules of the humoral immune system. Upon infection or vaccination, populations of antibodies are generated which bind to various regions of the invading pathogen or exogenous agent. Defining the reactivity and breadth of this antibody response provides an underst...

Descripción completa

Detalles Bibliográficos
Autores principales: Parker Cates, Zoe, Facciuolo, Antonio, Hogan, Daniel, Griebel, Philip J., Napper, Scott, Kusalik, Anthony J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9581008/
https://www.ncbi.nlm.nih.gov/pubmed/36303765
http://dx.doi.org/10.3389/fbinf.2021.694324
_version_ 1784812521072361472
author Parker Cates, Zoe
Facciuolo, Antonio
Hogan, Daniel
Griebel, Philip J.
Napper, Scott
Kusalik, Anthony J.
author_facet Parker Cates, Zoe
Facciuolo, Antonio
Hogan, Daniel
Griebel, Philip J.
Napper, Scott
Kusalik, Anthony J.
author_sort Parker Cates, Zoe
collection PubMed
description Antibodies are critical effector molecules of the humoral immune system. Upon infection or vaccination, populations of antibodies are generated which bind to various regions of the invading pathogen or exogenous agent. Defining the reactivity and breadth of this antibody response provides an understanding of the antigenic determinants and enables the rational development and assessment of vaccine candidates. High-resolution analysis of these populations typically requires advanced techniques such as B cell receptor repertoire sequencing, mass spectrometry of isolated immunoglobulins, or phage display libraries that are dependent upon equipment and expertise which are prohibitive for many labs. High-density peptide microarrays representing diverse populations of putative linear epitopes (immunoarrays) are an effective alternative for high-throughput examination of antibody reactivity and diversity. While a promising technology, widespread adoption of immunoarrays has been limited by the need for, and relative absence of, user-friendly tools for consideration and visualization of the emerging data. To address this limitation, we developed EPIphany, a software platform with a simple web-based user interface, aimed at biological users, that provides access to important analysis parameters, data normalization options, and a variety of unique data visualization options. This platform provides researchers the greatest opportunity to extract biologically meaningful information from the immunoarray data, thereby facilitating the discovery and development of novel immuno-therapeutics.
format Online
Article
Text
id pubmed-9581008
institution National Center for Biotechnology Information
language English
publishDate 2021
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-95810082022-10-26 EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data Parker Cates, Zoe Facciuolo, Antonio Hogan, Daniel Griebel, Philip J. Napper, Scott Kusalik, Anthony J. Front Bioinform Bioinformatics Antibodies are critical effector molecules of the humoral immune system. Upon infection or vaccination, populations of antibodies are generated which bind to various regions of the invading pathogen or exogenous agent. Defining the reactivity and breadth of this antibody response provides an understanding of the antigenic determinants and enables the rational development and assessment of vaccine candidates. High-resolution analysis of these populations typically requires advanced techniques such as B cell receptor repertoire sequencing, mass spectrometry of isolated immunoglobulins, or phage display libraries that are dependent upon equipment and expertise which are prohibitive for many labs. High-density peptide microarrays representing diverse populations of putative linear epitopes (immunoarrays) are an effective alternative for high-throughput examination of antibody reactivity and diversity. While a promising technology, widespread adoption of immunoarrays has been limited by the need for, and relative absence of, user-friendly tools for consideration and visualization of the emerging data. To address this limitation, we developed EPIphany, a software platform with a simple web-based user interface, aimed at biological users, that provides access to important analysis parameters, data normalization options, and a variety of unique data visualization options. This platform provides researchers the greatest opportunity to extract biologically meaningful information from the immunoarray data, thereby facilitating the discovery and development of novel immuno-therapeutics. Frontiers Media S.A. 2021-07-07 /pmc/articles/PMC9581008/ /pubmed/36303765 http://dx.doi.org/10.3389/fbinf.2021.694324 Text en Copyright © 2021 Parker Cates, Facciuolo, Hogan, Griebel, Napper and Kusalik. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Bioinformatics
Parker Cates, Zoe
Facciuolo, Antonio
Hogan, Daniel
Griebel, Philip J.
Napper, Scott
Kusalik, Anthony J.
EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data
title EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data
title_full EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data
title_fullStr EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data
title_full_unstemmed EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data
title_short EPIphany—A Platform for Analysis and Visualization of Peptide Immunoarray Data
title_sort epiphany—a platform for analysis and visualization of peptide immunoarray data
topic Bioinformatics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9581008/
https://www.ncbi.nlm.nih.gov/pubmed/36303765
http://dx.doi.org/10.3389/fbinf.2021.694324
work_keys_str_mv AT parkercateszoe epiphanyaplatformforanalysisandvisualizationofpeptideimmunoarraydata
AT facciuoloantonio epiphanyaplatformforanalysisandvisualizationofpeptideimmunoarraydata
AT hogandaniel epiphanyaplatformforanalysisandvisualizationofpeptideimmunoarraydata
AT griebelphilipj epiphanyaplatformforanalysisandvisualizationofpeptideimmunoarraydata
AT napperscott epiphanyaplatformforanalysisandvisualizationofpeptideimmunoarraydata
AT kusalikanthonyj epiphanyaplatformforanalysisandvisualizationofpeptideimmunoarraydata