A Cyclic Permutation Approach to Removing Spatial Dependency between Clustered Gene Ontology Terms
Rachel Rapoport,
Avraham Greenberg,
Zohar Yakhini
et al.
Abstract:Traditional gene set enrichment analysis falters when applied to large genomic domains, where neighboring genes often share functions. This spatial dependency creates misleading enrichments, mistaking mere physical proximity for genuine biological connections. Here we present Spatial Adjusted Gene Ontology (SAGO), a novel cyclic permutation-based approach, to tackle this challenge. SAGO separates enrichments due to spatial proximity from genuine biological links by incorporating the genes’ spatial arrangement … Show more
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