Yasin Uzun

This study shows that IGF2BP family proteins suppress RNA-sensing pathways by binding TNFAIP3 mRNA, reducing innate immune signaling in AML cells.

This study examines how estrogen deprivation interacts with periodontitis across multiple tissues in mice, showing combined effects on bone marrow and periodontal tissues.

This study shows that deleting CK2α in hematopoietic stem cells (HSCs) alters their transcriptome toward an immune-primed state, with tissue-specific effects on inflammatory and immune-related genes.

SPEAR predicts gene expression from chromatin accessibility in single-cell multiome data, showing that transformer models achieve the highest correlation across two biological systems.

scMultiPreDICT compares the predictive power of transcriptional and epigenetic features for gene expression using single-cell multiomics data, showing gene-specific contributions of each layer.

This study identifies the BNIP3-mTOR signaling axis as a mediator of resistance to MET inhibition in glioblastoma and shows that combined MET and mTOR inhibition synergistically enhances anti-tumor effects.

The paper identifies an inflammatory secretory progenitor cell state in Crohn's disease patients and shows its epigenetic regulation in stem cells.

This study shows that CK2 inhibitor CX-4945 targets EWS-FLI1 and reduces tumor growth and metastasis in Ewing Sarcoma models.

The paper maps G-quadruplexes across the human genome and haplotypes, showing their enrichment in repetitive regions and association with genomic instability and PRDM9 binding.

SINBAD is a tool for processing and analyzing single-cell DNA methylation data, offering preprocessing, quality assessment, and analysis modules.

The paper introduces MAPLE, a framework that predicts gene activity from single-cell DNA methylation data, improving integration with transcriptome data for clustering and cell type identification.

The paper identifies a pre-hematopoietic (pre-HE) stage in mouse embryos and shows RUNX1 regulates the transition to hemogenic endothelium, leading to distinct HSPC populations in intra-arterial clusters.

scATAC-pro is a software tool for processing, analyzing, and visualizing scCAS data, providing quality assessment and downstream analysis utilities.

The paper defines the transcriptomes and epigenomes of key developmental stages of HSC ontogeny in mice and constructs transcriptional regulatory networks using computational methods.