Daniel Rosebrock

A brain immune phenotype independent of Alzheimer's Disease associates with amyloid susceptibility and systemic inflammation

Multimodal evidence for impaired glymphatic brain clearance as a mediator of "inflammaging" in schizophrenia - integrating insights from in vivo neuroimaging, omics, and post-mortem single nucleus-RNA-Seq data

The paper integrates neuroimaging, omics, and single nucleus-RNA-Seq data to show glymphatic dysfunction in schizophrenia is linked to inflammation, aging, and cognitive decline.

Characterization and pharmacological modulation of Alzheimers disease-associated human microglial states

The paper identifies a disease-associated microglial state in AD using transcriptomics and shows a compound can reverse it.

CAbiNet: Joint visualization of cells and genes based on a gene-cell graph

CAbiNet jointly visualizes cells and genes using a gene-cell graph and biMAP embedding for interactive exploration and biclustering.

Combined tumor and immune signals from genomes or transcriptomes predict outcomes of checkpoint inhibition in melanoma

The paper develops DNA- and RNA-based models combining immune and tumor features to predict outcomes of checkpoint inhibition in melanoma.

A comprehensive analysis of RNA sequences reveals macroscopic somatic clonal expansion across normal tissues

This study analyzes RNA-seq data from 6,700 normal tissues to identify somatic mutations and their association with age and tissue proliferation, finding tissue-specific cancer mutation hotspots.

Comprehensive analysis of tumour initiation, spatial and temporal progression under multiple lines of treatment

PhylogicNDT statistically reconstructs cancer driver timing, subclonal phylogenies, and population dynamics from single- or multi-timepoint sequencing, revealing subtype-specific trajectories and therapy resistance evolution across 498 lung adenocarcinomas.

FireCloud, a scalable cloud-based platform for collaborative genome analysis: Strategies for reducing and controlling costs

Four levers for cheaper cloud genomics on FireCloud: size virtual disks dynamically, tune VM provisioning from monitoring data, buy preemptible machines, and parallelise tasks at the right width.