Jindan Yu

Morphomechanically-Informed Spatial Curvature Sequencing in Prostate Cancer

This paper introduces CurvSeq and CurvSee to analyze prostate cancer morphology and molecular profiles, identifying cancer-associated genes and morphomechanical niches linked to progression.

AI-enabled Spatial Profiling of Circulating Tumor-Immune Ecosystems Predicts Patient Outcomes Across Cancers

The paper develops an AI framework to analyze blood scans and predict patient outcomes by characterizing tumor-immune ecosystems in circulation.

Fusion gene discovery in single cells from high throughput long read single cell transcriptomes

This paper introduces LongFUSE, a tool for detecting fusion genes in single-cell long-read RNA sequencing data, showing improved accuracy over existing methods.

RNA-Binding Protein NF90 Mediates Polycomb-Independent Transactivation by EZH2 to Promote Cancer Growth

This study identifies NF90 as a coactivator of EZH2's polycomb-independent transactivation function in prostate cancer, promoting cell growth and poor clinical outcomes.

Epigenetic remodeling and 3D chromatin reorganization governed by NKX2-1 drive neuroendocrine prostate cancer

This study identifies NKX2-1-driven epigenetic and 3D chromatin remodeling as key to neuroendocrine prostate cancer progression and reveals CBP/p300 inhibitors as potential therapeutic targets.

Uncovering the dark transcriptome in polarized neuronal compartments with mcDETECT

The paper introduces mcDETECT, a machine learning framework for detecting RNA granules in spatial transcriptomics data, revealing functionally distinct neuronal substates and early Alzheimer's disease pathology.