Acquired therapeutic resistance is a key contributor to cancer treatment failure, requiring new approaches to address its complex mechanisms. In this Roadmap, Soragni, Knudsen and colleagues discuss t...

Data and code to reproduce results from DECIPHER-seq paper. Updated for use with Seurat v5 objects and rLiger v2. - dasuperville/DECIPHER-seq-v2

Image-based spatial transcriptomics deliver gene expression measurements of RNA transcripts in tissue slices with single-molecule resolution and spatial context preserved. Modern Graph Neural Network ...

Nature Biotechnology - Single-molecule live-cell fluorescence in situ hybridization uses an RNA-targeting CRISPR–Csm complex to image and track endogenous RNAs.

Large-scale scATAC-seq experiments are challenging because of their costs, lengthy protocols, and confounding batch effects. Several sample multiplexing technologies aim to address these challenges, b...

Programmable Enrichment via RNA FlowFISH by sequencing (PERFF-seq) isolates rare cells based on RNA marker transcripts for single-cell RNA sequencing profiling of complex tissues, with applicability t...

Pooled genetic CRISPR screening is improved in complex models through leveraging internal controls.

The tumor microenvironment (TME) is a complex network of interactions between malignant and host cells, yet its orchestration in advanced high-grade serous ovarian carcinoma (HGSC) remains poorly unde...

Anti-tumor immunity is crucial for high-grade serous ovarian cancer (HGSC) prognosis, yet its adaptation upon standard chemotherapy remains poorly und…

Muspan is a powerful software package designed for biologists to perform spatial analysis on imaging data. Our multiscale toolbox simplifies the analysis of spatial transcriptomics and histology, enab...

Inflammatory monocytes are identified as important players in T cell restimulation in the tumour microenvironment.

Thomas, Marx et al. devise a live imaging approach to spatiotemporally dissect mouse ovulation ex vivo.