Arina I. Nikolskaya

Sequence-based models for RNA-Protein interactions imputation might be insufficient for novel signal prediction in eCLIP data

The paper presents a machine learning framework to predict RNA-protein interactions using eCLIP data and shows its limitations in extrapolating to proteins without such data.

COMPARATIVE ANALYSIS OF THE RNA-CHROMATIN INTERACTOME DATA

The paper compares RNA-chromatin interactome data from two experimental approaches to assess contact completeness and specificity using an overrepresentation metric.

Comprehensive analysis of RNA-chromatin, RNA- and DNA-protein interactions

The paper introduces a triad interaction framework to reduce noise in RNA-chromatin interaction data and validate interactions using experimental controls.

BaRDIC: robust peak calling for RNA-DNA interaction data

BaRDIC improves peak calling in RNA-DNA interaction data by addressing chromatin heterogeneity and distance-dependent decay, outperforming existing methods.