Richard Lupat

Comprehensive drug efficacy data for mucinous ovarian carcinoma using a novel and extensive biobank of patient-derived organoid models

This paper develops a large biobank of patient-derived MOC organoids and screens them for drug efficacy, finding resistance to standard therapies and effectiveness of less commonly used drugs.

Phylogenetic analysis of paired breast carcinomas identifies genetic events associated with clonal recurrence and invasive progression

The paper analyzes paired breast carcinomas to determine if recurrences are clonal or new tumors, finding 7% are non-clonal by whole exome sequencing.

Using Artificial Intelligence (AI) to Model Clinical Variant Reporting for Next Generation Sequencing (NGS) Oncology Assays

This paper builds machine learning models to predict clinically reportable variants from NGS oncology assays, achieving high precision and recall.

macpie: scalable workflow for high-throughput transcriptomic profiling

macpie streamlines analysis of high-throughput transcriptomic profiling data from plate-based screens using R, integrating preprocessing, quality control, and multimodal data integration.