Alexander Monell

SpatialTRACE extends anatomical annotations from a few structures to tissue-wide maps using graph and image-based models in spatial transcriptomics and microscopy.

The paper establishes immgenT-CD8 as a comprehensive reference for mouse CD8αβ T cell differentiation states across diverse immunological contexts.

This paper presents a single-cell multiome atlas of the human basal ganglia, linking chromatin states and transcriptomes to cell-type identity and disease-associated variants.

The paper creates a single-cell atlas of transcription and chromatin states in the human brain, identifying regulatory programs and linking them to neuropsychiatric disorders.

MERFISH+ enables high-resolution spatial multi-omics mapping of gene expression and chromatin organization in developing human hearts with subcellular resolution.

This study identifies proteostasis as critical for T cell differentiation potential and tumor-infiltrating lymphocyte function, showing that maintaining E3 ubiquitin ligases improves anti-tumor responses.

The paper investigates how spatial location influences the functional diversity of memory CD8 T cells by analyzing their transcriptomes in the small intestine.

Bento enables subcellular analysis of spatial transcriptomics data by defining domains, annotating localization patterns, and quantifying gene colocalization, demonstrating its use on multiple datasets.

This paper demonstrates that transient suppression of PTBP1 in aged glial cells can re-activate neurogenesis in murine and human brains, generating new neurons through canonical pathways.