Cankut Çubuk

cellGeometry deconvolutes bulk RNA-Seq using geometric methods, offering faster and more accurate results than existing approaches.

CanVar-UK is a web platform that supports collaborative interpretation of germline variants in cancer susceptibility genes by integrating variant data, clinical information, and expert discussions.

The paper identifies immune endotypes in OA synovial tissue using integrated molecular and spatial profiling to guide precision medicine.

The paper identifies analgesic targets in mouse sensory neurons by analyzing translatomes in somata and terminals under different pain conditions.

The paper presents a web interface for a mechanistic model of the SARS-CoV-2 disease map to infer gene expression-related activities and study intervention effects.

The paper presents a large-scale cancer pharmacogenomic screen with 11,576 experiments on 910 drug combinations across 85 cancer cell lines, enabling crowd-sourced prediction of synergistic drug pairs and biomarkers.

The paper introduces Metabolizer, a web tool that uses gene expression data to analyze metabolic pathway activities and predict therapeutic targets for disease treatment.

This study shows that signaling pathway activities are better predictors of breast cancer prognosis than gene-level features and identify additional genes contributing to prognosis beyond pathway analysis.