Sanja Vicković

The paper introduces SPACE-Tag, a spatial CUT&Tag method for chromatin profiling, and applies it to the mouse brain to reveal age-related chromatin and transcriptome changes.

This study identifies spatially resolved aging and senescence signatures in the human hippocampus using multi-omics approaches, revealing cell-type and sex-specific gene expression changes.

This study creates a spatial and cellular atlas of the colon across age groups using spatial transcriptomics and single nucleus RNA-seq, identifying age-related molecular gradients and multicellular programs.

The paper compares early-onset and late-onset colorectal cancer using scRNA-seq and VIPER to identify distinct stromal and epithelial features in early-onset tumors.

INLAomics integrates spatial transcriptomics and proteomics to identify gene-protein networks and predict protein expression, improving accuracy over single-modality approaches.

This paper introduces a spatial sequencing method to study host-microbiome interactions in the mouse gut using deep learning for spatial niche detection.

The paper develops a computational framework for spatial omics power analysis using in silico tissue generation and applies it across diverse spatial data modalities.

This study uses spatial transcriptomics to analyze cell type dynamics in rheumatoid arthritis synovium, revealing chemokine-driven interactions in inflamed tissue.

SM-Omics is a platform that combines spatial transcriptomics and proteomics to analyze tissue samples at scale.

The paper introduces Tangram, a method that aligns single-nucleus RNA-seq data with spatial data to create an anatomically integrated spatial map of the mouse brain.

This paper introduces HDST, a high-resolution spatial transcriptomics method, and demonstrates its application in mouse brain tissue to resolve spatial expression patterns and cell types.

Splotch aligns spatial transcriptomics data across tissue sections and timepoints to improve gene expression estimates and study optimal experimental design.

The paper was withdrawn due to the inclusion of confidential information about a third party.

Analysis of the ALS spinal cord using Spatial Transcriptomics reveals spatiotemporal dynamics of disease driven gene regulation.

This study uses multidimensional transcriptomics to analyze immune cell distribution and identity in HER2+ breast tumors, revealing spatial heterogeneity and interpatient differences in immune infiltration.