ArticleNucleic acids research2022
DeepLoc 2.0: multi-label subcellular localization prediction using protein language models.
Article in Nucleic acids research, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 392 papers, 1 of them a synthesis that pooled it.
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392 citing papers in PubMed, 1 synthesis or guideline pooled it.
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- Predicting membrane protein localization by deep learning on structure and chemistry.Protein science : a publication of the Protein Society · 2026Article
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- Toward Rational Design of Precision-Fermented Milk Proteins: Integrating Cross-Species Selection, Post-Translational Modification, and AI Optimization.Comprehensive reviews in food science and food safety · 2026Review
- Genome-Wide Identification and Characterization of Thaumatin-Like Proteins in Potato (Solanum tuberosum L.) and Their Role in Stress Tolerance.Molecular biotechnology · 2026Article
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- Developing SCL2205: a protein sequence-based spatial modelling dataset for the protein language model frontier.Bioinformatics (Oxford, England) · 2026Article
332 more citing papers are in PubMed but not listed here.
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5 authors.
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Abstract
The prediction of protein subcellular localization is of great relevance for proteomics research. Here, we propose an update to the popular tool DeepLoc with multi-localization prediction and improvements in both performance and interpretability. For training and validation, we curate eukaryotic and human multi-location protein datasets with stringent homology partitioning and enriched with sorting signal information compiled from the literature. We achieve state-of-the-art performance in DeepLoc 2.0 by using a pre-trained protein language model. It has the further advantage that it uses sequence input rather than relying on slower protein profiles. We provide two means of better interpretability: an attention output along the sequence and highly accurate prediction of nine different types of protein sorting signals. We find that the attention output correlates well with the position of sorting signals. The webserver is available at services.healthtech.dtu.dk/service.php?DeepLoc-2.0.
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