Siyuan Zheng

This study identifies midkine (MDK) as a critical regulator of medulloblastoma growth and survival, showing that its suppression reduces tumor growth and prolongs survival in xenograft models.

Spatial-Live provides a lightweight tool for visualizing single-cell spatial-omics data in 3D with interactive features and data integration.

OpenPBTA provides a collaborative platform to genomically characterize 1,074 pediatric brain tumors and 22 cell lines, offering analysis modules and somatic datasets for research and clinical applications.

DepLink links genetic and pharmacologic dependencies in cancer by integrating CRISPR, pharmacologic, and expression data through an R Shiny app.

This study benchmarks four supervised signature-scoring methods for single-cell RNA sequencing data in cancer, showing that bulk-sample-based methods are biased while single-cell-based methods are more accurate.

The paper introduces a method to estimate telomerase enzymatic activity using a 13-gene expression signature and validates it across multiple datasets, finding a strong correlation with cancer stemness.

The paper identifies 407 Master-Regulator proteins that canalize cancer genomics into transcriptional subtypes and links genetic alterations to tumor biology through modular regulatory architectures.

PCAT is a portal for pediatric cancer PDX models and associated genomic data, providing clinical, molecular, and preclinical testing information for 324 models and 79 therapeutic agents.

This paper genomically characterizes 261 pediatric cancer patient-derived xenograft models to guide rational clinical trial design and drug development.

The paper analyzes tumor-intrinsic gene expression subtypes in IDH wild type glioblastomas and their association with immune microenvironment changes during recurrence.