J. A. Somarelli

A sequence- and structure-based characterization of microbial enzymes identifies P. stutzeri as a plastic-degrading species

The paper identifies Pseudomonas stutzeri as a plastic-degrading species by analyzing microbial enzyme sequences and structures, and validates its ability to degrade synthetic polymers.

Atrx deletion impairs cGAS-STING signaling and increases response to radiation and oncolytic herpesvirus in sarcoma

This study shows that ATRX deletion in sarcomas increases sensitivity to radiation and oncolytic herpesvirus by impairing cGAS-STING signaling and reducing immune response.

A synthetic lethal screen for Snail-induced enzalutamide resistance identifies JAK/STAT signaling as a therapeutic vulnerability in prostate cancer

The paper identifies JAK/STAT signaling as a therapeutic target for Snail-induced enzalutamide-resistant prostate cancer through synthetic lethal screens and validation in a resistant cell model.

Partial EMT and associated changes in cellular plasticity in oncovirus-positive samples

The paper analyzes transcriptomics data to identify common gene regulatory features in oncovirus-positive samples, revealing partial EMT and metabolic changes linked to immune checkpoint molecules.

Analysis of immune subtypes across the epithelial-mesenchymal plasticity spectrum

The paper analyzes immune subtypes across the epithelial-mesenchymal plasticity spectrum in cancers, finding heterogeneity in EMT status and associations between immune subtypes and EMT scores.

An integrated comparative physiology and molecular approach pinpoints mediators of breath-hold capacity in dolphins

This study identifies ALOX5 upregulation during breath-holding in dolphins as a potential molecular mechanism for ischemic tolerance during diving.

E-cadherin represses anchorage-independent growth in sarcomas through both signaling and mechanical mechanisms

This study identifies E-cadherin's role in suppressing sarcoma growth through both signaling (inhibiting p-CREB and TBX2) and mechanical (enhancing cell-cell adhesion) mechanisms.

From the clinic to the bench and back again in one dog year: identifying new treatments for sarcoma using a cross-species personalized medicine pipeline

This paper develops a cross-species personalized medicine pipeline using canine sarcomas to identify new treatments, finding proteasome inhibitors initially effective but limited by tumor heterogeneity.

An integrative systems biology and experimental approach identifies convergence of epithelial plasticity, metabolism, and autophagy to promote chemoresistance

EMT and MET: necessary or permissive for metastasis?

This paper examines the role of EMT and MET in metastasis, arguing that these processes are not binary and proposes alternative mechanisms beyond the traditional EMT-MET model.

Epithelial-mesenchymal plasticity: How have quantitative mathematicalmodels helped improve our understanding?

This paper reviews how quantitative mathematical models have advanced understanding of epithelial-mesenchymal plasticity in tumors by explaining data, guiding experiments, and improving conceptual frameworks.