TY - JOUR
T1 - Next-generation IEDB tools
T2 - A platform for epitope prediction and analysis
AU - Yan, Zhen
AU - Kim, Kevin
AU - Kim, Haeuk
AU - Ha, Brendan
AU - Gambiez, Anaïs
AU - Bennett, Jason
AU - De Almeida Mendes, Marcus Fabiano
AU - Trevizani, Raphael
AU - Mahita, Jarjapu
AU - Richardson, Eve
AU - Marrama, Daniel
AU - Blazeska, Nina
AU - Koşaloǧlu-Yalçln, Zeynep
AU - Nielsen, Morten
AU - Sette, Alessandro
AU - Peters, Bjoern
AU - Greenbaum, Jason A.
N1 - Publisher Copyright:
© 2024 The Author(s). Published by Oxford University Press on behalf of Nucleic Acids Research.
PY - 2024
Y1 - 2024
N2 - The Next-Generation (NG) IEDB Tools website (https://nextgen-tools.iedb.org) provides users with a redesigned interface to many of the algorithms for epitope prediction and analysis that were originally released on the legacy IEDB Tools website. The initial release focuses on consolidation of all tools related to HLA class I epitopes (MHC binding, elution, immunogenicity, and processing), making all of these predictions accessible from a single application and allowing for their simultaneous execution with minimal user inputs. Additionally, the PEPMatch tool for identifying highly similar epitopes in a set of curated proteomes, as well as a tool for epitope clustering, are available on the site. The NG Tools site allows users to build data pipelines by sending the output of one tool as input for the next. Over the next several years, all pre-existing IEDB Tools, and any newly developed tools, will be integrated into this new site. Here we describe the philosophy behind the redesign and demonstrate the utility and productivity enhancements that are enabled by the new interface.
AB - The Next-Generation (NG) IEDB Tools website (https://nextgen-tools.iedb.org) provides users with a redesigned interface to many of the algorithms for epitope prediction and analysis that were originally released on the legacy IEDB Tools website. The initial release focuses on consolidation of all tools related to HLA class I epitopes (MHC binding, elution, immunogenicity, and processing), making all of these predictions accessible from a single application and allowing for their simultaneous execution with minimal user inputs. Additionally, the PEPMatch tool for identifying highly similar epitopes in a set of curated proteomes, as well as a tool for epitope clustering, are available on the site. The NG Tools site allows users to build data pipelines by sending the output of one tool as input for the next. Over the next several years, all pre-existing IEDB Tools, and any newly developed tools, will be integrated into this new site. Here we describe the philosophy behind the redesign and demonstrate the utility and productivity enhancements that are enabled by the new interface.
U2 - 10.1093/nar/gkae407
DO - 10.1093/nar/gkae407
M3 - Journal article
C2 - 38783079
AN - SCOPUS:85197816883
SN - 0305-1048
VL - 52
SP - W526-W532
JO - Nucleic Acids Research
JF - Nucleic Acids Research
IS - W1
ER -