Zora D. Modrusan

The paper develops a deep learning model from H&E images to predict T-effector biology and ICI response in ccRCC, showing strong correlation with RNA-based scores and clinical outcomes.

This study uses direct RNA sequencing to analyze epitranscriptomic changes in brain cells, revealing m6A modification patterns linked to Alzheimer's disease progression.

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

This study benchmarks long-read RNA-seq across bulk and single-cell platforms, technologies, and sequencing depths, identifying optimal methods for transcript discovery and quantification.

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 builds a dictionary of human intestinal organoid responses to 81 secreted niche factors using scRNA-seq, mapping perturbations and identifying cell type-specific pathways in an IBD context.

The paper uses a CRISPR/Cas9 screen to identify genes modulating ASO activity, revealing AP1M1 and TBC1D23 as key regulators of endosome-Golgi transport affecting ASO efficacy.

This study identifies a nonenzymatic role of IRE1 in cancer cell cycle progression and tumor growth, independent of its kinase-RNase activity.

The paper identifies CR1 variants as a risk factor for FSGS across diverse populations through a case-control study and variant analysis.

The paper identifies very long-chain ceramides in muscle as independently associated with insulin resistance, separate from adiposity effects, using genetic variation in mice.

This study shows that mesothelioma cells develop drug resistance by reverting to a promoter-centric gene regulation mechanism when treated with a TEAD inhibitor.

This study identifies Notch-dependent progenitor-like HCCs that regress upon Notch inhibition, revealing a therapeutic target in a poor-prognosis subgroup.

This study identifies Dpt+ fibroblasts as essential for maintaining a Csf1-dependent macrophage niche in skin, with implications for wound healing and scleroderma.

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 identifies enhancer-promoter hubs in cancer types and shows their role in oncogenesis and drug resistance through topological and transcriptional changes.

This study introduces scTaILoR-seq, a long-read targeted RNA sequencing method, to enhance single-cell transcriptome analysis and identify isoform variation and SNV associations in ovarian cancer.

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 glomerular immune injury increases anti-tumor activity by altering bone marrow transcription in mice.

This study compares FMR1 knock-out and Fragile X patient iPSC-derived neuronal models, finding shared transcriptional and functional impairments in neuronal activity and differentiation.

This study identifies RNF146 as an E3 ubiquitin ligase that degrades TEAD proteins via the proteasome, showing that pharmacological induction of TEAD ubiquitination can suppress YAP/TAZ-driven cancer growth.

The paper analyzes aging and senescence in kidney glomeruli using bulk and single-cell RNA sequencing, identifying mesangial cells as key contributors to age-related renal dysfunction.

The paper identifies a novel transcriptional signature in human Alzheimer's myeloid cells that differs from mouse models and shows aging-related and AD-specific gene expression changes.

SCINA is a semi-supervised model for analyzing scRNA-Seq and flow cytometry data, improving accuracy and efficiency over unsupervised methods by leveraging gene signatures.

This study shows that PEG10 binds RNA and regulates trophoblast stem cell differentiation into placental lineages by stabilizing key RNAs like Hbegf.

The paper identifies a proliferative progenitor-like cell subpopulation in postnatal mouse islets that drives β cell expansion through Notch pathway activity.