Inhibition of autocrine HGF maturation overcomes cetuximab resistance in colorectal cancer.

Although amplifications and mutations in receptor tyrosine kinases (RTKs) act as bona fide oncogenes, in most cancers, RTKs maintain moderate expression and remain wild-type. Consequently, cognate ligands control many facets of tumorigenesis, including resistance to anti-RTK therapies. Herein, we show that the ligands for the RTKs MET and RON, HGF and HGFL, respectively, are synthesized as inactive precursors that are activated by cellular proteases.

Elucidation of physico-chemical principles of high-density lipoprotein-small RNA binding interactions.

Extracellular small RNAs (sRNAs) are abundant in many biofluids, but little is known about their mechanisms of transport and stability in RNase-rich environments. We previously reported that high-density lipoproteins (HDLs) in mice were enriched with multiple classes of sRNAs derived from the endogenous transcriptome, but also from exogenous organisms. Here, we show that human HDL transports tRNA-derived sRNAs (tDRs) from host and nonhost species, the profiles of which were found to be altered in human atherosclerosis.

Supermeres are functional extracellular nanoparticles replete with disease biomarkers and therapeutic targets.

Extracellular vesicles and exomere nanoparticles are under intense investigation as sources of clinically relevant cargo. Here we report the discovery of a distinct extracellular nanoparticle, termed supermere. Supermeres are morphologically distinct from exomeres and display a markedly greater uptake in vivo compared with small extracellular vesicles and exomeres.

Pharmacological blockade of the EP3 prostaglandin E receptor in the setting of type 2 diabetes enhances β-cell proliferation and identity and relieves oxidative damage.

Objective: Type 2 diabetes is characterized by hyperglycemia and inflammation. Prostaglandin E, which signals through four G protein-coupled receptors (EP1-4), is a mediator of inflammation and is upregulated in diabetes. We have shown previously that EP3 receptor blockade promotes β-cell proliferation and survival in isolated mouse and human islets ex vivo.

A cross-platform informatics system for the Gut Cell Atlas: integrating clinical, anatomical and histological data.

The Gut Cell Atlas (GCA), an initiative funded by the Helmsley Charitable Trust, seeks to create a reference platform to understand the human gut, with a specific focus on Crohn's disease. Although a primary focus of the GCA is on focusing on single-cell profiling, we seek to provide a framework to integrate other analyses on multi-modality data such as electronic health record data, radiological images, and histology tissues/images. Herein, we use the research electronic data capture (REDCap) system as the central tool for a secure web application that supports protected health information (PHI) restricted access.

Data on the mechanobiological differences in the transcriptomes of human fetal and adult dermal fibroblasts in response to extracellular matrix rigidity.

Fetal skin is known to proceed through the wound healing process without the formation of scar tissue but rather via regeneration. Fetal dermal fibroblasts have emerged as a significant driving force in this regenerative response due to their unique phenotypic characteristics including our recent finding of an attenuated contractile response to extracellular matrix (ECM) rigidity that normally contributes to myofibroblast differentiation and scar formation. We provide data here that these mechanobiological differences in fetal dermal fibroblasts also extend to their genetic profile in which we found 353 differentially expressed genes when compared to adult dermal fibroblasts.

scRNABatchQC: multi-samples quality control for single cell RNA-seq data.

Summary: Single cell RNA sequencing is a revolutionary technique to characterize inter-cellular transcriptomics heterogeneity. However, the data are noise-prone because gene expression is often driven by both technical artifacts and genuine biological variations. Proper disentanglement of these two effects is critical to prevent spurious results.