Michael Borja

This study compares human and mouse ovarian biology across age using 3D-imaging, single-cell transcriptomics, and functional studies, identifying species-specific and age-related changes in follicle dynamics and gene expression.

This study uses single-cell RNA sequencing to show that M. tuberculosis ESX-1 promotes the recruitment and differentiation of anti-inflammatory macrophages in infected mouse lungs.

The paper presents Zebrahub-Multiome, a single-cell multiomic atlas of zebrafish embryogenesis, revealing gene regulatory network dynamics and cis-regulatory elements across developmental stages.

This study uses single-nucleus RNA sequencing to analyze a mouse glioblastoma model, identifying potential therapeutic targets and similarities with human GBM subtypes.

The paper provides a framework and interactive software tools for manually annotating cell types in single-cell multi-omics datasets, demonstrating how different modalities can be combined to improve annotation accuracy.

Zebrafish embryos sequenced individually across ten developmental stages, paired with light-sheet lineage reconstruction, form an atlas and browser for in silico fate mapping.

The paper compares MERFISH spatial transcriptomics with bulk and single-cell RNA sequencing in mouse liver and kidney, finding MERFISH provides comparable results and robust cell type identification without needing integration with scRNA-seq atlases.

This study uses single-cell RNA-sequencing to analyze cell type-specific responses to young or aged blood in heterochronic parabiosis, identifying mitochondrial function as a key factor in rejuvenation.