Welcome to the Waldron lab for public health data science at the CUNY School of Public Health in New York City. I teach biostatistics and have an active research program in cancer genomics and in metagenomic profiling of the human microbiome. My lab aims to generate new insights into human health, disease, and treatment through improved tools and novel analysis of publicly available data.
We analyse high-throughput biological data in the context of epidemiology and public health. Current projects have included analysis of the oral microbiome of New York City, molecular subtypes of ovarian cancer, the development of methods and data resources for the analysis and comprehension of multi’omics data.
Initiatives by funding sources and academic publication outlets, coupled with increasingly efficient technology for collecting and storing data, mean there is more data than ever available to researchers seeking causes and better treatments for disease. Unfortunately, substantial barriers prevent most researchers from being able to analyze these data. We curate, organize, and standardize important publicly available health datasets and make them available in forms immediately usable to users of the popular R/Bioconductor software platform. Recent databases we have released include curatedMetagenomicData to assist re-analysis of microbiome data from more than 6,000 participants, HMP16SData for the Human Microbiome Project, and curatedTCGAData for The Cancer Genome Atlas.
We have employed meta-analysis to resolve uncertainty around the robustness and relationship to patient outcome of proposed molecular subtypes of ovarian cancer, and establish whether genetic heterogeneity that exists within tumors is likely to be an obstacle to subtype-specific therapies.