Weiping Ma

sCCIgen generates synthetic spatial transcriptomics data with known cell-cell interaction features to evaluate analytical tools.

The paper introduces OpenPedCan, a harmonized multi-omic dataset of pediatric cancer patients, providing integrated genomic, transcriptomic, and proteomic data for research and clinical applications.

The paper analyzes CPTAC phosphoproteomics data to identify kinase activity differences between tumor and normal tissues across cancers and develops a web portal for querying kinase activity scores and associated data.

An ensemble of six imputation methods, built through the NCI-CPTAC Proteogenomics DREAM Challenge, fills missing values in labeled LC-MS/MS proteomics data, helping most for low-abundance proteins.

The paper identifies VGF as a key regulator of Alzheimer’s disease using multiscale causal network models and validates its protective role in mouse models.