A multi-scale analysis and visualization platform for cancer data – deriving tumor microenvironment behavior from pathology and transcriptomics

Abstract: Heterogeneity is a hallmark of cancer and perhaps one of the most important features associated with resistance to therapies and likelihood of recurrence and/or metastasis. Genomic instability contributes to genetic diversity, which leads to high levels of intratumoural heterogeneity.…

Using systems medicine for comprehensive metabolic profiling of tumors: how tumor metabolism shapes prognosis and response to chemotherapy

Abstract: Background: Metabolic disfunction is one of the hallmarks of cancer, and metabolism-based therapies are a key class of chemotherapeutics. Despite this, there has previously been no systematic way to identify metabolism-based targets for therapeutic intervention. This is especially concerning…

Profiling the metabolism of pancreatic adenocarcinoma using a systems medicine-based approach reveals insights into tumor biology, prognosis, and new therapeutic strategies

Abstract: Background: One of the hallmarks of cancer is metabolic dysregulation that has been therapeutically targeted with metabolism-based therapies, an important class of chemotherapeutics. However, there has previously been no systematic way to identify key targets for metabolism-based therapeutic interventions.…

Spatio-temporal modeling of the tumor microenvironment for prediction of patient-specific response to chemotherapy

Abstract: Tumor heterogeneity, understood as the intrinsic (e.g., mutations, dysregulation, metabolic reprogramming) and extrinsic (e.g., nutrient/drug perfusion, interactions with surrounding tissues and the tumor microenvironment (TME)) to the cells that constitute the tumor, drives the variability of response to neoadjuvant…

Integrating imaging and multi-omics data to elucidate racial differences in breast tumor biology to optimize precision oncology approaches and patient outcome

Abstract: Background: Racial disparities in breast cancer incidence and clinical outcome have been well characterized. In particular, African American (AA) patients have higher mortality rates than other racial groups. Research into these racial disparities has primarily focused on socioeconomic determinants,…