ArticleInternational journal of molecular sciences2026
RNA-Binding Protein Occupancy Composition Predicts Long Noncoding RNA Subcellular Localization.
Article in International journal of molecular sciences, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
The subcellular localization of long noncoding RNAs (lncRNAs) is a central determinant of their function, yet its molecular determinants remain incompletely defined, and most existing predictors rely on the primary sequence. Because RNA-binding proteins (RBPs) are the proximal effectors of RNA compartmentalization, this study tested whether the composition of RBPs bound to a lncRNA is predictive of its nuclear or cytoplasmic localization. Enhanced crosslinking and immunoprecipitation (eCLIP) occupancy for 139 RBPs in K562 cells was integrated with the cytoplasmic-nuclear relative concentration indices (CN-RCIs) derived from matched subcellular fractionation, and localization was modeled under chromosome-grouped cross-validation with nested regularization. RBP-occupancy composition predicted localization beyond the transcript size and total binding amount (incremental cross-validated coefficient of determination, delta-R-squared = 0.17; receiver-operating-characteristic area under the curve, AUC = 0.73, a moderate-strength association; Freedman-Lane permutation,
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