{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["4"],"submitter":["Filella-Merce I"],"pubmed_abstract":["The current richness of sequence data needs efficient methodologies to display and analyze the complexity of the information in a compact and readable manner. Traditionally, phylogenetic trees and sequence similarity networks have been used to display and analyze sequences of protein families. These methods aim to shed light on key computational biology problems such as sequence classification and functional inference. Here, we present a new methodology, AlignScape, based on self-organizing maps. AlignScape is applied to three large families of proteins: the kinases and GPCRs from human, and bacterial T6SS proteins. AlignScape provides a map of the similarity landscape and a tree representation of multiple sequence alignments These representations are useful to display, cluster, and classi"],"journal":["Frontiers in bioinformatics"],"pagination":["1321508"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC10853471"],"repository":["biostudies-literature"],"pubmed_title":["AlignScape, displaying sequence similarity using self-organizing maps."],"pmcid":["PMC10853471"],"pubmed_authors":["Durand E","Filella-Merce I","Nilges M","Mallet V","Bouvier G","Pellarin R"],"additional_accession":[]},"is_claimable":false,"name":"AlignScape, displaying sequence similarity using self-organizing maps.","description":"The current richness of sequence data needs efficient methodologies to display and analyze the complexity of the information in a compact and readable manner. Traditionally, phylogenetic trees and sequence similarity networks have been used to display and analyze sequences of protein families. These methods aim to shed light on key computational biology problems such as sequence classification and functional inference. Here, we present a new methodology, AlignScape, based on self-organizing maps. AlignScape is applied to three large families of proteins: the kinases and GPCRs from human, and bacterial T6SS proteins. AlignScape provides a map of the similarity landscape and a tree representation of multiple sequence alignments These representations are useful to display, cluster, and classi","dates":{"release":"2024-01-01T00:00:00Z","publication":"2024","modification":"2025-04-22T22:01:27.504Z","creation":"2025-04-06T03:53:35.958Z"},"accession":"S-EPMC10853471","cross_references":{"pubmed":["38343649"],"doi":["10.3389/fbinf.2024.1321508"]}}