Pan-Cancer Single-cell Spatial Omics Platform

About P-CaSSO

P-CaSSO (Pan-Cancer Single cell Spatial Omics) is a web database that provides in-depth analysis of spatial transcriptomics data across multiple cancer types. We have accurately predicted (deconvoluted) the cellular distribution in spatial transcriptomics data based on a pan-cancer single-cell reference. Users can visually explore these results, along with rich downstream analyses of the spatial characteristics and cell-cell interaction networks within the tumor microenvironment. P-CaSSO offers tools to easily compare and analyze the cellular ecosystems of various cancer tissues. Our objective is to facilitate the discovery of new biological insights and hypotheses within a complex spatial context.

Latest Update

We updated P-CaSSO. The current version contains 'n' Visium samples.

v1.4

Data Processing Pipeline

Our comprehensive workflow for integrating single-cell and spatial transcriptomics data

Data Collection

Integration of single-cell and spatial transcriptomics from public databases including Human Cell Atlas, NCBI, GEO, EMBL-EBI, and Single Cell Portal

Data Processing

Quality control, batch correction, cell type annotation, and reference data formation for both scRNA-seq and Visium spatial transcriptomics

Analysis & Visualization

Cell-type deconvolution, spatial analysis, domain analysis based CNV, and cell-type LR enrichment for comprehensive spatial omics insights

Platform Features

Explore our comprehensive suite of tools and data types for cancer genomics research

Data Types

Single-cell RNA sequencing (scRNA-seq)
Visium spatial transcriptomics
Histological images
Metadata and annotations

Cancer Types

• Breast Cancer

• Lung Cancer

• Colorectal Cancer

• Pancreatic Cancer

• Liver Cancer

• Ovarian Cancer

• Kidney Cancer

• Prostate Cancer

• Skin Cancer

• Thyroid Cancer

• Head & Neck Cancer

• Endometrial Cancer

• Esophageal Cancer

• Stomach Cancer

Features

Interactive Browser: Search and filter datasets by tissue type, data type, and other criteria
Data Export: Download raw data and processed files in multiple formats
Metadata Access: Comprehensive sample information and experimental details
Tissue Visualization: Interactive tissue map for dataset exploration

Contact & Support

P-CaSSO is a research platform developed to support cancer genomics research. For questions, collaboration opportunities, or technical support, please reach out to our team.

Research Inquiries

Contact our research team for collaboration opportunities

Technical Support

Report issues or request features on our GitHub repository