biostudies-literatureUnknown25(1)Huang J<h4>Background</h4>Protein residue-residue distance maps are used for remote homology detection, protein information estimation, and protein structure research. However, existing prediction approaches are time-consuming, and hundreds of millions of proteins are discovered each year, necessitating the development of a rapid and reliable prediction method for protein residue-residue distances. Moreover, because many proteins lack known homologous sequences, a waiting-free and alignment-free deep learning method is needed.<h4>Result</h4>In this study, we propose a learning framework named FreeProtMap. In terms of protein representation processing, the proposed group pooling in FreeProtMap effectively mitigates issues arising from high-dimensional sparseness in protein representation. In termsBMC bioinformatics176https://www.ebi.ac.uk/biostudies/studies/S-EPMC11069170biostudies-literatureFreeprotmap: waiting-free prediction method for protein distance map.PMC11069170Tang JChen QLi JHuang JChen GWang XfalseFreeprotmap: waiting-free prediction method for protein distance map.<h4>Background</h4>Protein residue-residue distance maps are used for remote homology detection, protein information estimation, and protein structure research. However, existing prediction approaches are time-consuming, and hundreds of millions of proteins are discovered each year, necessitating the development of a rapid and reliable prediction method for protein residue-residue distances. Moreover, because many proteins lack known homologous sequences, a waiting-free and alignment-free deep learning method is needed.<h4>Result</h4>In this study, we propose a learning framework named FreeProtMap. In terms of protein representation processing, the proposed group pooling in FreeProtMap effectively mitigates issues arising from high-dimensional sparseness in protein representation. In terms2024-01-01T00:00:00Z2024 May2026-06-03T03:54:13.474Z2026-04-24T03:09:21.66ZS-EPMC110691703870453310.1186/s12859-024-05771-0