BANKSY unifies cell typing and tissue domain segmentation for scalable spatial omics data analysis
Sign Up to like & getrecommendations! Published in 2024 at "Nature Genetics"
DOI: 10.1038/s41588-024-01664-3
Abstract: Spatial omics data are clustered to define both cell types and tissue domains. We present Building Aggregates with a Neighborhood Kernel and Spatial Yardstick (BANKSY), an algorithm that unifies these two spatial clustering problems by… read more here.
Keywords: banksy; domain segmentation; spatial omics; cell typing ... See more keywords
AFragmenter: schema-free, tuneable protein domain segmentation for AlphaFold protein structures
Sign Up to like & getrecommendations! Published in 2025 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btaf588
Abstract: Abstract Summary Protein domain segmentation is a crucial aspect of understanding protein functions and interactions, and it is vital for protein modelling exercises and evolutionary studies. Current segmentation methods often rely on predefined classification schemes,… read more here.
Keywords: domain segmentation; schema free; segmentation; protein ... See more keywords
Protein domain embeddings for fast and accurate similarity search
Sign Up to like & getrecommendations! Published in 2024 at "Genome Research"
DOI: 10.1101/gr.279127.124
Abstract: Recently developed protein language models have enabled a variety of applications with the protein contextual embeddings they produce. Per-protein representations (each protein is represented as a vector of fixed dimension) can be derived via averaging… read more here.
Keywords: domain segmentation; domain embeddings; protein; protein domain ... See more keywords