Spyros Darmanis

This study identifies how aging impairs colonic regeneration in mice by promoting a fetal-like epithelial state through sustained IFNγ signaling.

This study shows that blocking OSM and IL-6 reduces fibrosis and inflammation in pulmonary fibrosis by targeting their shared receptor and distinct pathways.

The paper shows IRF2 degradation by IRF1 during immune responses enhances ISG transcription, revealing a regulatory circuit between IRF1 and IRF2 in innate immunity.

This study identifies G-CSF and IL-6 as drivers of myeloid dysregulation during severe viral infection, showing their role in emergency myelopoiesis and tissue injury.

OAK enables ultra-high throughput single-cell multiomic profiling with high sensitivity and reduced labor, demonstrating its utility in detecting rare resistant cell populations.

This study compares ten commercial scRNA-seq technologies using PBMCs, finding the 10x Genomics kit offers superior performance and the Becton Dickinson kit provides cost-effective performance per cell.

This study shows that injury in the acoel Convolutriloba longifissura triggers coordinated responses between the host and its symbiotic algae, mediated by the runt transcription factor.

The paper generates melanocytes from hPSCs through two distinct developmental trajectories and identifies T2-specific factors that promote melanoma metastasis.

The paper uses single-cell RNA sequencing to identify and characterize neuropeptide and peptide hormone genes in pulmonary neuroendocrine cells from mice and humans, revealing their diverse signaling roles and potential endocrine functions.

Portal integrates large-scale single-cell datasets efficiently and accurately by preserving biological variation across samples, platforms, and species.

The paper introduces dynamo, a framework for estimating RNA velocities and predicting cell fates using single-cell RNA-seq data, applied to various biological processes.

MARS identifies and annotates known and novel cell types in single-cell RNA-seq data by transferring latent representations across datasets and generating interpretable names for new cell types.

The paper analyzes single-cell mRNA counts from adult mouse tissues to show that gene expression is often intermittent rather than restricted to specific cell types, with peak transcription levels consistent across tissues but varying probabilities of activity.

OnClass classifies single-cell data into Cell Ontology terms and identifies marker genes for all categories, even those absent in training data.

The paper examines how transcriptomic types of mouse prefrontal cortex projection neurons relate to axonal projections and encoding properties across cognitive tasks, finding redundant but quantitatively biased task signal encoding.

The paper analyzes the Tabula Muris Senis dataset to identify aging-related gene expression changes across 76 tissue-cell types in mice, revealing both shared and cell-type specific aging signatures.

This study uses single-cell RNAseq to identify chloride channel roles in airway development, showing their impact on differentiation and disease-like defects.

The paper analyzes aging dynamics across 17 organs and plasma proteomics in mice, revealing consistent gene expression trajectories with organ-specific timing and amplitude.

This study uses scRNA-seq to analyze microglia and myeloid cells across brain regions and developmental stages, revealing heterogeneity in postnatal microglia and their roles in disease.

The paper identifies EpCAM+/CDH6+/TROP-2- cells as liver progenitors using single-cell RNA sequencing in human fetal and adult liver tissue.

This study uses single-cell RNAseq to analyze infiltrating neoplastic cells in human glioblastoma, identifying consistent gene signatures and distinct myeloid cell populations across patients.