Daniela Calini

Single nuclei RNAseq stratifies multiple sclerosis patients into distinct white matter glia responses

The paper uses single nuclei RNAseq to identify distinct glial gene expression patterns in MS patients, revealing subgroup-specific pathological processes and suggesting precision medicine approaches.

Single-nucleus and spatial transcriptomic profiling of human temporal cortex and white matter reveals novel associations with AD pathology

This study uses single-nucleus and spatial transcriptomics to identify cell type-specific associations with Alzheimer's disease pathology in human temporal cortex and white matter.

Disease-specific selective vulnerability and neuroimmune pathways in dementia revealed by single cellgenomics

The paper uses single-cell genomics to identify shared and disease-specific cell states and gene regulatory networks in three dementias, revealing distinct neuroimmune mechanisms and potential therapeutic targets.

A structured evaluation of cryopreservation in generating single cell transcriptomes from cerebrospinal fluid

This study evaluates a cryopreservation protocol for CSF cells, showing it preserves cell composition and transcriptomes effectively, enabling multi-center research.

CellMixS: quantifying and visualizing batch effects in single cell RNA-seq data

CellMixS quantifies and visualizes batch effects in scRNA-seq data by developing a cell-specific mixing score and comparing metrics for their performance.

On the discovery of population-specific state transitions from multi-sample multi-condition single-cell RNA sequencing data

This paper develops a simulation platform and analysis tools for multi-condition differential state analysis in scRNA-seq data, comparing cell-level mixed models and pseudobulk approaches.